## SEQALIGN documentation

## CONTENTS

1.0 SUMMARY
2.0 INPUTS & OUTPUTS
3.0 INPUT FILE FORMAT
4.0 OUTPUT FILE FORMAT
5.0 DATA FILES
6.0 USAGE
7.0 KNOWN BUGS & WARNINGS
8.0 NOTES
9.0 DESCRIPTION
10.0 ALGORITHM
11.0 RELATED APPLICATIONS
12.0 DIAGNOSTIC ERROR MESSAGES
13.0 AUTHORS
14.0 REFERENCES

## 1.0 SUMMARY

Extend alignments (DAF file) with sequences (DHF file)

## 2.0 INPUTS & OUTPUTS

SEQALIGN reads a directory of "seed" alignments and a directory of sets of protein sequences and writes a directory of "extended" alignments. An extended alignment is a seed alignment that is extended with sequences from the appropriate sequence set. The sets directory must contain a sequence set for each seed alignment directory and the files must have the same base name. For example, sequences from "family.sets" are used to extend the seed alignment "family.aln".
Typically, the inputs are (i) DAF files (domain alignment files) containing structure-based sequence alignments and (ii) DHF files (domain hits files) containing sequence relatives (of unknown structure) of these alignments, and the output are DAF files containing the extended alignments.
The base names of the output alignments are the same as the input alignments. The paths for input and output files are specified by the user and the file extensions are set in the ACD file.

## 3.0 INPUT FILE FORMAT

The format of the domain alignment file is described in DOMAINALIGN documentation.
If other alignment files are used as input, all of the common file formats are supported.
The format of the domain hits file is described in SEQSEARCH documentation.
If other sequence sets are used as input, all of the common file formats are supported.

## 4.0 OUTPUT FILE FORMAT

The format of the domain alignment file is described in DOMAINALIGN documentation. Note however that the file will never contain 'Number' or 'Post_similar' records. Futhermore, the code before each sequence is of the form Acc_Start_End (where domain hits files were used as input sequences) or Acc_n (where other sequences were used as input), where 'Acc' is the accession number of the sequence, 'Start' and 'End' are the start and end point of the sequence in the full length sequence respectively, and 'n' is a sequential count of the sequence in the alignment.

### Output files for usage example

### File: 54894.daf

    # TY   SCOP
    # XX
    # CL   Alpha and beta proteins (a+b)
    # XX
    # FO   Ferredoxin-like
    # XX
    # SF   Aspartate carbamoyltransferase, Regulatory-chain, N-terminal domain
    # XX
    # FA   Aspartate carbamoyltransferase, Regulatory-chain, N-terminal domain
    # XX
    # SI   54894
    # XX
    d4at1b1_0                 0 GVEAIKRGTVIDHIPAQIGFKLLSLFKLTETD----QRITIGLNLPXSGEMGRKDLIKIE 0
    d4at1d1_1                 0 GVEAIKRGTVIDHIPAQIGFKLLSLFKLTETD----QRITIGLNLPSGXEMGRKDLIKIE 0
    P00478_1_92               0 -VEAIKRGTVIDHIPAQIGFKLLSLFKLTETD----QRITIGLNLPSG-EMGRKDLIKIE 0
    Q83IL8_1_92               0 -VEAIKRGTVIDHIPAQIGFKLLSLFKLTETD----QRITIGLNLPSG-EMGRKDLIKIE 0
    P08421_1_92               0 -VEAIKCGTVIDHIPAQVGFKLLSLFKLTETD----QRITIGLNLPSG-EMGRKDLIKIE 0
    Q8Z130_1_92               0 -VEAIKCGTVIDHIPAQVGFKLLSLFKLTETD----QRITIGLNLPSG-EMGRKDLIKIE 0
    Q8ZB38_1_92               0 -VEAIKCGTVIDHIPAQIGFKLLSLFKLTATD----QRITIGLNLPSK-RSGRKDLIKIE 0
    P19936_1_92               0 -VEAIKCGTVIDHIPAQIGFKLLTLFKLTATD----QRITIGLNLPSN-ELGRKDLIKIE 0
    Q7MZ14_1_92               0 -VEAIRCGTVIDHIPAQVGFKLLSLFKLTETD----QRITIGLNLPSN-RLGKKDLIKIE 0
    Q8K9H8_1_92               0 -VEAIKSGSVIDHIPAHIGFKLLSLFRFTETE----KRITIGLNLPSQ-KLDKKDIIKIE 0
    P57451_1_92               0 -VEAIKSGSVIDHIPEYIGFKLLSLFRFTETE----KRITIGLNLPSK-KLGRKDIIKIE 0
    Q9KP65_1_92               0 -VEAIKNGTVIDHIPAKVGIKVLKLFDMHNSA----QRVTIGLNLPSS-ALGSKDLLKIE 0
    Q87LF7_1_92               0 -VEAIKNGTVIDHIPAQIGIKVLKLFDMHNSS----QRVTIGLNLPSS-ALGHKDLLKIE 0
    Q8DCF7_1_92               0 -VEAIKNGTVIDHIPAQVGIKVLKLFDMHNSS----QRVTIGLNLPSS-ALGNKDLLKIE 0
    Q7MHF0_1_92               0 -VEAIKNGTVIDHIPAQVGIKVLKLFDMHNSS----QRVTIGLNLPSS-ALGNKDLLKIE 0
    Q8D1W6_1_92               0 -VEAIFGGTVIDHIPAQVGLKLLSLFKWLHTK----ERITMGLNLPSN-QQKKKDLIKLE 0
    Q7P144_1_92               0 -VEALKQGTVIDHIPAGEGVKILRLFKLTETG----ERVTVGLNLVSR-HMGSKDLIKVE 0
    P96175_1_92               0 -VEAICNGYVIDHIPSGQGVKILRLFSLTDTK----QRVTVGFNLPSH-DGTTKDLIKVE 0
    Q9K1K9_1_92               0 -VEAIEKGTVIDHIPAGRGLTILRQFKLLHYG----NAVTVGFNLPSK-TQGSKDIIKIK 0
    Q9JWY6_1_92               0 -VEAIEKGTVIDHIPAGRGLTILRQFKLLHYG----NAVTVGFNLPSK-TQGSKDIIKIK 0
    Q970X3_1_91               0 -VSKIKNGTVIDHIPAGRALAVLRILKIAEG-----YRIALVMNVESK-KMGKKDIVKIE 0
    Q9UX07_1_93               0 -VSKIRNGTVIDHIPAGRALAVLRILGIRGSEG---YRVALVMNVESK-KIGRKDIVKIE 0
    P74766_1_93               0 -VSKIKNGTVIDHIPAGRAFAVLNVLGIKGHEG---FRIALVINVDSK-KMGKKDIVKIE 0
    Q8ZTG2_1_93               0 -VSKIENGTVIDHIPAGRALTVLRILGISGKEG---LRVALVMNVESK-KLGKKDIVKIE 0
    O58452_1_94               0 -VSAIKEGTVIDHIPAGKGLKVIEILGLSKLSNG--GSVLLAMNVPSK-KLGRKDIVKVE 0
    Q8U374_1_94               0 -VSAIKEGTVIDHIPAGKGLKVIQILGLGELKNG--GAVLLAMNVPSK-KLGRKDIVKVE 0
    P77919_1_94               0 -VSAIKEGTVIDHIPAGKGLKVIEILKLGKLTNG--GAVLLAMNVPSK-KLGRKDIVKVE 0
    O30129_1_93               0 -VSKIKEGTVIDHINAGKALLVLKILKIQPGTD---LTVSMAMNVPSS-KMGKKDIVKVE 0
    Q8TVB1_1_92               0 -VKRIEMGTVLDHLPPGTAPQIMRILDIDPTET----TLLVAINVESS-KMGRKDILKIE 0
    Q8THL3_1_92               0 -IQAIENGTVIDHITAGQALNVLRILRISSAFR---ATVSFVMNAPGA--RGKKDVVKIE 0
    Q8PXK6_1_92               0 -VQAIESGTVIDHIKSGQALNVLRILGISSAFR---ATISFVMNAPGA--GGKKDVVKIE 0
    Q9HHN3_1_93               0 -VSKIQAGTVIDHIPAGQALQVLQILGTNGASD---DQITVGMNVTSE-RHHRKDIVKIE 0
    Q58801_1_91               0 -VKKITNGTVIDHIDAGKALMVFKVLNVPKETS-----VMIAINVPSK-KKGKKDILKIE 0
    O26938_1_91               0 -VKPIKNGTVIDHITANRSLNVLNILGLPDGRS----KVTVAMNMDSS-QLGSKDIVKIE 0
    Q97B28_1_93               0 -ISKIKDGTVIDHIPSGKALRVLSILGIRDDVD---YTVSVGMHVPSS-KMEYKDVIKIE 0
    Q9HKM3_1_93               0 -ISKIRDGTVIDHVPSGKGIRVIGVLGVHEDVN---YTVSLAIHVPSN-KMGFKDVIKIE 0
    Q9YBD5_1_95               0 -VRKIRSGVVIDHIPPGRAFTMLKALGLLPPRGY-RWRIAVVINAESS-KLGRKDILKIE 0
    Q7MX57_1_92               0 -VAAIRNGIVIDHIPPTKLFKVATLLQLDDLDK----RITIGNNLRSR-SHGSKGVIKIE 0
    Q8A9S4_1_92               0 -VAALKNGTVIDHIPSEKLFTVVQLLGVEQMKCN----ITIGFNLDSK-KLGKKGIIKIA 0
    Q891I9_1_91               0 -ITSIKDGIVIDHIKSGYGIKIFNYLNLKNVEYS----VALIMNVFSS-KLGKKDIIKIA 0
    Q97FS4_1_90               0 -INSIKNGIVIDHIKAGHGIKIYNYLKLGEAEFP----TALIMNAISK-KNKAKDIIKIE 0
    P96111_1_98               0 GIKPIENGTVIDHIAKGKTPEEIYSTILKIRKILRLYDVDSADGIFRSSDGSFKGYISLP 0

    d4at1b1_0                 0 NTFLSEDQVDQLALYAPQATVNRIDNYEVVGKSRPSLP 0
    d4at1d1_1                 0 NTFLSEDQVDQLALYAPQATVNRIDNYEVVGKSRPSLP 0
    P00478_1_92               0 NTFLSEDQVDQLALYAPQATVNRIDNYEVVGKSRPSLP 0
    Q83IL8_1_92               0 NTFLSEEQVDQLALYAPQATVNRIDNYEVVGKSRPSLP 0
    P08421_1_92               0 NTFLTEEQVNQLALYAPQATVNRIDNYDVVGKSRPSLP 0
    Q8Z130_1_92               0 NTFLTDEQVNQLALYAPQATVNRIDNYDVVGKSRPSLP 0
    Q8ZB38_1_92               0 NTFLTEQQANQLAMYAPDATVNRIDNYEVVKKLTLSLP 0
    P19936_1_92               0 NTFLTEQQANQLAMYAPKATVNRIDNYEVVRKLTLSLP 0
    Q7MZ14_1_92               0 NTFLTEQQANQLAMYAPNATVNCIENYEVVKKLPINLP 0
    Q8K9H8_1_92               0 NTFLSDDQINQLAIYAPCATVNYIEKYNLVGKIFPSLP 0
    P57451_1_92               0 NTFLSDEQINQLAIYAPHATVNYINEYNLVRKVFPTLP 0
    Q9KP65_1_92               0 NVFISEAQANKLALYAPHATVNQIENYEVVKKLALQLP 0
    Q87LF7_1_92               0 NVFINEEQASKLALYAPHATVNQIENYEVVKKLALELP 0
    Q8DCF7_1_92               0 NVFINEEQASKLALYAPHATVNQIEDYQVVKKLALELP 0
    Q7MHF0_1_92               0 NVFINEEQASKLALYAPHATVNQIEDYQVVKKLALELP 0
    Q8D1W6_1_92               0 NVLLNEDQANQLSIYAPLATVNQIKNYIVIKKQKLKLP 0
    Q7P144_1_92               0 NVALTEEQANELALFAPKATVNVIDNFEVVKKHKLTLP 0
    P96175_1_92               0 NTEITKSQANQLALLAPNATVNIIENFKVTDKHSLALP 0
    Q9K1K9_1_92               0 GVCLDDKAADRLALFAPEAVVNTIDNFKVVQKRHLNLP 0
    Q9JWY6_1_92               0 GVCLDDKAADRLALFAPEAVVNTIDHFKVVQKRHLNLP 0
    Q970X3_1_91               0 NKEVDEKEANLITLIAPTATINIIRDYEVVEKKKLKIP 0
    Q9UX07_1_93               0 DRVIDEKEASLITLIAPSATINIIRDYVVTEKRHLEVP 0
    P74766_1_93               0 DKEISDTEANLITLIAPTATINIVREYEVVKKTKLEVP 0
    Q8ZTG2_1_93               0 GRELTPEEVNIISAVAPTATINIIRNFAVVKKFKVTPP 0
    O58452_1_94               0 GKFLSEEEVNKIALVAPTATVNIIRNYKVVEKFKVEVP 0
    Q8U374_1_94               0 GKFLSEEEVNKIALVAPTATVNIIREYKVVEKFKVEIP 0
    P77919_1_94               0 GRFLSEEEVNKIALVAPNATVNIIRDYKVVEKFKVEVP 0
    O30129_1_93               0 GMFIRDEELNKIALISPNATINLIRDYEIERKFKVSPP 0
    Q8TVB1_1_92               0 GKILSEEEANKVALVAPNATVNIVRDYSVAEKFQVKPP 0
    Q8THL3_1_92               0 GKELSVEELNRIALISPKATINIIRDFEVVQKNKVVLP 0
    Q8PXK6_1_92               0 GKELSVEELNRIALISPKATINIIRDFVVVQKNNVVLP 0
    Q9HHN3_1_93               0 GRELSQDEVDVLSLIAPDATINIVRDYEVDEKRRVDRP 0
    Q58801_1_91               0 GIELKKEDVDKISLISPDVTINIIRNGKVVEKLKPQIP 0
    O26938_1_91               0 NRELKPSEVDQIALIAPRATINIVRDYKIVEKAKVRL- 0
    Q97B28_1_93               0 NRSLDKNELDMISLTAPNATISIIKNYEISEKFKVELP 0
    Q9HKM3_1_93               0 NRFLDRNELDMISLIAPNATISIIKNYEISEKFQVELP 0
    Q9YBD5_1_95               0 GYKPRQRDLEVLGIIAPGATFNVIEDYKVVEKVKLKLP 0
    Q7MX57_1_92               0 DKTFEEEELNRIALIAPNVRLNIIRDYEVVEKRQVEVP 0
    Q8A9S4_1_92               0 DKFFCDEEINRISVVAPYVKLNIIRDYEVVEKKEVRMP 0
    Q891I9_1_91               0 NKEIDID-FTVLGLIDPTITINIIEDEKIKEKLNLELP 0
    Q97FS4_1_90               0 N--VMDLDLAVLGFLDPNITVNIIEDEKIRQKIQLKLP 0
    P96111_1_98               0 DRYLSKKEIKKLSAISPNTTVNIIKNSTVVEKYRIKLP 0

### File: 55074.daf

    # TY   SCOP
    # XX
    # CL   Alpha and beta proteins (a+b)
    # XX
    # FO   Ferredoxin-like
    # XX
    # SF   Adenylyl and guanylyl cyclase catalytic domain
    # XX
    # FA   Adenylyl and guanylyl cyclase catalytic domain
    # XX
    # SI   55074
    # XX
    d1cs4a__0                 0 MMFHKIYIQKXHXDNVSILFADIEGFTSLASQC----TAQELVMTLNELFARFDKLAAE- 0
    d1fx2a__1                 0 XXNNNRAPXKEPTDPVTLIFTDIESSTALWAAX----HPDLMPDAVAAHHRMVRSLIGR- 0
    Q04400_1_189              0 MMFHKIYIQK--HDNVSILFADIEGFTSLASQC----TAQELVMTLNELFARFDKLAAE- 0
    P40144_1_189              0 MMFHKIYIQK--HDNVSILFADIEGFTSLASQC----TAQELVMTLNELFARFDKLAAE- 0
    P30803_1_189              0 MMFHKIYIQK--HDNVSILFADIEGFTSLASQC----TAQELVMTLNELFARFDKLAAE- 0
    O95622_1_189              0 MMFHKIYIQK--HDNVSILFADIEGFTSLASQC----TAQELVMTLNELFARFDKLAAE- 0
    Q03343_1_189              0 MMFHKIYIQK--HDNVSILFADIEGFTSLASQC----TAQELVMTLNELFARFDKLAAE- 0
    O43306_1_189              0 MMFHKIYIQK--HDNVSILFADIEGFTSLASQC----TAQELVMTLNELFARFDKLAAE- 0
    Q01341_1_188              0 MMFHKIYIQK--HDNVSILFADIEGFTSLASQC----TAQELVMTLNELFARFDKLAAE- 0
    P30804_1_188              0 MMFHKIYIQK--HDNVSILFADIEGFTSLASQC----TAQELVMTLNELFARFDKLAAE- 0
    Q99279_1_218              0 --NNNRAPKE-PTDPVTLIFTDIESSTALWAA-----HPDLMPDAVAAHHRMVRSLIGR- 0
    Q99280_6_216              0 ---------KEPTGPVTLIFTDIESSTALWAA-----HPDLMPDAVATHHRLIRSLITR- 0
    P26338_1_216              0 ----NNLAPKELTDPVTLIFTDIESSTALWAA-----HPELMPDAVATHHRLIRSLIGR- 0
    Q26721_1_206              0 --------------PVTLIFTDIESSTALWAA-----HPEVMPDAVATHHRLIRTLISK- 0
    Q99396_1_212              0 ---------KELADPVTLIFTDIESSTAQWAT-----QPELMPDAVATHHSMVRSLIEN- 0
    Q08828_1_186              0 --FHKIYIQR--HDNVSILFADIVGFTGLASQC----TAQELVKLLNELFGKFDELATE- 0
    P19754_1_186              0 --FHKIYIQR--HDNVSILFADIVGFTGLASQC----TAQELVKLLNELFGKFDELATE- 0
    P32870_1_186              0 --FHRIYIQK--HENVSILFADIVGFTVLSSQC----SAQELVRLLNELFGRFDQLAHD- 0
    Q26896_6_216              0 ---------KEFTDPVTLIFTDIESSTALWAA-----HPGMMADAVATHHRLIRSLIAL- 0
    P97490_1_186              0 --FHRIYIHR--YENVSILFADVKGFTNLSTTL----SAQELVRMLNELFARFDRLAHE- 0
    P40146_1_186              0 --FHRIYIHR--YENVSILFADVKGFTNLSTTL----SAQELVRMLNELFARFDRLAHE- 0
    P40145_1_186              0 --FHRIYIHR--YENVSILFADVKGFTNLSTTL----SAQELVRMLNELFARFDRLAHE- 0
    Q8VHH7_1_186              0 --FNTMYMYR--HENVSILFADIVGFTQLSSAC----SAQELVKLLNELFARFDKLAAK- 0
    P21932_1_186              0 --FNTMYMYR--HENVSILFADIVGFTQLSSAC----SAQELVKLLNELFARFDKLAAK- 0
    O60266_1_186              0 --FNTMYMYR--HENVSILFADIVGFTQLSSAC----SAQELVKLLNELFARFDKLAAK- 0
    Q27675_1_217              0 ---NNDAAPKDGDEPVTLLFTDIESSTALWAA-----LPQLMSDAIAAHHRVIRQLVKK- 0
    Q25263_1_217              0 ---NNDAAPKDGDEPVTLLFTDIESSTALWAA-----LPQLMSDAIAAHHRVIRQLVKK- 0
    Q91WF3_1_158              0 --FHSLYVKR--HQGVSVLYADIVGFTRLASEC----SPKELVLMLNELFGKFDQIAKE- 0
    Q8NFM4_1_158              0 --FHSLYVKR--HQGVSVLYADIVGFTRLASEC----SPKELVLMLNELFGKFDQIAKE- 0
    P26770_1_158              0 --FHSLYVKR--HQGVSVLYADIVGFTRLASEC----SPKELVLMLNELFGKFDQIAKE- 0
    Q08462_1_186              0 --FHNLYVKR--HTNVSILYADIVGFTRLASDC----SPGELVHMLNELFGKFDQIAKE- 0
    P26769_1_186              0 --FHNLYVKR--HTNVSILYADIVGFTRLASDC----SPGELVHMLNELFGKFDQIAKE- 0
    Q29450_1_186              0 --FHNLYVKR--HQNVSILYADIVGFTRLASDC----SPKELVVVLNELFGKFDQIAKA- 0
    P51829_1_186              0 --FHSLYVKR--HQNVSILYADIVGFTRLASDC----SPKELVVVLNELFGKFDQIAKA- 0
    P51828_1_186              0 --FHSLYVKR--HQNVSILYADIVGFTQLASDC----SPKELVVVLNELFGKFDQIAKA- 0
    P98999_1_150              0 -------------EQVSILFADIVGFTKMSANK----SAHALVGLLNDLFGRFDRLCEE- 0
    Q9DGG6_1_181              0 -------------EQVSILFADIVGFTKMSANK----SAHALVGLLNDLFGRFDRLCED- 0
    P51830_1_179              0 ---------------VSILFADIVGFTKMSANK----SAHALVGLLNDLFGRFDRLCEQ- 0

      [Part of this file has been deleted for brevity]

    P40144_1_159              0 ---------------------- 0
    P30803_1_159              0 ---------------------- 0
    O95622_1_159              0 ---------------------- 0
    Q03343_1_159              0 ---------------------- 0
    Q01341_1_159              0 ---------------------- 0
    P30804_1_159              0 ---------------------- 0
    O43306_1_159              0 ---------------------- 0
    P97490_1_162              0 ---------------------- 0
    P40146_1_162              0 ---------------------- 0
    P40145_1_162              0 ---------------------- 0
    O30820_1_149              0 ---------------------- 0
    Q03101_1_149              0 ---------------------- 0
    P16065_1_143              0 ---------------------- 0
    P46197_1_168              0 ---------------------- 0
    P20594_1_168              0 ---------------------- 0
    P16067_1_168              0 ---------------------- 0
    P18293_1_168              0 ---------------------- 0
    P18910_1_168              0 ---------------------- 0
    P16066_1_168              0 ---------------------- 0
    P55202_1_154              0 ---------------------- 0
    Q07553_1_152              0 ---------------------- 0
    Q02846_1_152              0 ---------------------- 0
    P52785_1_150              0 ---------------------- 0
    P51840_1_150              0 ---------------------- 0
    O19179_1_150              0 ---------------------- 0
    P55203_1_151              0 ---------------------- 0
    P51842_1_152              0 ---------------------- 0
    P51841_1_152              0 ---------------------- 0
    O02740_1_162              0 ---------------------- 0
    P51839_1_163              0 ---------------------- 0
    P55204_1_150              0 ---------------------- 0
    P25092_1_150              0 ---------------------- 0
    P70106_1_150              0 ---------------------- 0
    P23897_1_150              0 ---------------------- 0
    P55205_1_154              0 ---------------------- 0
    Q09435_1_161              0 ---------------------- 0
    P22717_1_147              0 ---------------------- 0
    O75343_1_147              0 ---------------------- 0
    Q9WVI4_1_149              0 ---------------------- 0
    P33402_1_149              0 ---------------------- 0
    Q9ERL9_1_152              0 ---------------------- 0
    P19686_1_160              0 ---------------------- 0
    Q02108_1_160              0 ---------------------- 0
    P19687_1_161              0 ---------------------- 0
    Q07093_1_158              0 ---------------------- 0
    Q02153_1_165              0 ---------------------- 0
    P20595_1_165              0 ---------------------- 0
    P16068_1_165              0 ---------------------- 0
    P40137_1_139              0 ---------------------- 0
    P23466_1_154              0 ---------------------- 0

### File: seqalign.log

    //
    /homes/user/test/qa/domainalign-keep/daf/54894.daf
    //
    /homes/user/test/qa/domainalign-keep/daf/55074.daf

## 5.0 DATA FILES

SEQALIGN does not use a data file.

## 6.0 USAGE

### 6.1 COMMAND LINE ARGUMENTS

    Extend alignments (DAF file) with sequences (DHF file).
    Version: EMBOSS:6.6.0.0

       Standard (Mandatory) qualifiers (* if not always prompted):
       -mode               menu       [1] This option specifies the mode of
                                      SEQALIGN operation. SEQALIGN takes as input
                                      a directory of either i. single sequences,
                                      ii. set of sequences (unaligned or aligned,
                                      but typically aligned sequences within a
                                      domain alignment file)). The user has to
                                      specify which. (Values: 1 (Single
                                      sequences); 2 (Multiple sequences (e.g.
                                      sequence set or alignment)))
    *  -dhfinpath          dirlist    [./] This option specifies the location of
                                      sequences, e.g. DHF files (domain hits
                                      files) (input). SEQALIGN takes as input a
                                      database of either i. single sequences, ii.
                                      sets of unaligned sequences or iii. sets of
                                      aligned sequences, e.g. a domain alignment
                                      file. A 'domain alignment file' contains a
                                      sequence alignment of domains belonging to
                                      the same SCOP or CATH family. The file is in
                                      clustal format annotated with domain family
                                      classification information. The files
                                      generated by using SCOPALIGN will contain a
                                      structure-based sequence alignment of
                                      domains of known structure only. Such
                                      alignments can be extended with sequence
                                      relatives (of unknown structure) by using
                                      SEQALIGN.
    *  -dafinpath          dirlist    [./] This option specifies the location of
                                      sequences, e.g. DAF files (domain alignment
                                      files) (input). SEQALIGN takes as input a
                                      database of either i. single sequences, ii.
                                      sets of unaligned sequences or iii. sets of
                                      aligned sequences, e.g. a domain alignment
                                      file. A 'domain alignment file' contains a
                                      sequence alignment of domains belonging to
                                      the same SCOP or CATH family. The file is in
                                      clustal format annotated with domain family
                                      classification information. The files
                                      generated by using SCOPALIGN will contain a
                                      structure-based sequence alignment of
                                      domains of known structure only. Such
                                      alignments can be extended with sequence
                                      relatives (of unknown structure) by using
                                      SEQALIGN.
      [-dhfindir]          directory  [./] This option specifies the location of
                                      DHF files (domain hits files) (input). A
                                      'domain hits file' contains database hits
                                      (sequences) with domain classification
                                      information, in the DHF format (FASTA or
                                      EMBL-like). The hits are relatives to a SCOP
                                      or CATH family and are found from a search
                                      of a sequence database. Files containing
                                      hits retrieved by PSIBLAST are generated by
                                      using SEQSEARCH.
       -amode              menu       [1] This option specifies which alignment
                                      algorithm to use. (Values: 1 (CLUSTALW); 2
                                      (TCOFFEE (not yet implemented)))
      [-dafoutdir]         outdir     [./] This option specifies the location of
                                      DAF files (domain alignment files) (output).
                                      A 'domain alignment file' contains a
                                      sequence alignment of domains belonging to
                                      the same SCOP or CATH family. The file is in
                                      clustal format annotated with domain family
                                      classification information. The files
                                      generated by using SCOPALIGN will contain a
                                      structure-based sequence alignment of
                                      domains of known structure only. Such
                                      alignments can be extended with sequence
                                      relatives (of unknown structure) by using
                                      SEQALIGN.
       -logfile            outfile    [seqalign.log] This option specifies the
                                      name of log file for the build. The log file
                                      contains messages about any errors arising
                                      while SEQALIGN ran.

       Additional (Optional) qualifiers:
       -forcetype          boolean    [N] This option specifies whether to force
                                      minimal domain classification data to be
                                      written to the output file in cases where
                                      singlet sequences were given as input file
                                      and no classification data was available

       Advanced (Unprompted) qualifiers: (none)
       Associated qualifiers:

       "-dhfinpath" associated qualifiers
       -extension          string     Default file extension

       "-dafinpath" associated qualifiers
       -extension          string     Default file extension

       "-dhfindir" associated qualifiers
       -extension1         string     Default file extension

       "-dafoutdir" associated qualifiers
       -extension2         string     Default file extension

       "-logfile" associated qualifiers
       -odirectory         string     Output directory

       General qualifiers:
       -auto               boolean    Turn off prompts
       -stdout             boolean    Write first file to standard output
       -filter             boolean    Read first file from standard input, write
                                      first file to standard output
       -options            boolean    Prompt for standard and additional values
       -debug              boolean    Write debug output to program.dbg
       -verbose            boolean    Report some/full command line options
       -help               boolean    Report command line options and exit. More
                                      information on associated and general
                                      qualifiers can be found with -help -verbose
       -warning            boolean    Report warnings
       -error              boolean    Report errors
       -fatal              boolean    Report fatal errors
       -die                boolean    Report dying program messages
       -version            boolean    Report version number and exit

Qualifier | Type | Description | Allowed values | Default
--- | --- | --- | --- | ---
Standard (Mandatory) qualifiers

-mode

list

This option specifies the mode of SEQALIGN operation. SEQALIGN takes as input a directory of either i. single sequences, ii. set of sequences (unaligned or aligned, but typically aligned sequences within a domain alignment file)). The user has to specify which.

1 | (Single sequences)
2 | (Multiple sequences (e.g. sequence set or alignment))

1

-dhfinpath

dirlist

This option specifies the location of sequences, e.g. DHF files (domain hits files) (input). SEQALIGN takes as input a database of either i. single sequences, ii. sets of unaligned sequences or iii. sets of aligned sequences, e.g. a domain alignment file. A 'domain alignment file' contains a sequence alignment of domains belonging to the same SCOP or CATH family. The file is in clustal format annotated with domain family classification information. The files generated by using SCOPALIGN will contain a structure-based sequence alignment of domains of known structure only. Such alignments can be extended with sequence relatives (of unknown structure) by using SEQALIGN.

Directory with files

./

-dafinpath

dirlist

This option specifies the location of sequences, e.g. DAF files (domain alignment files) (input). SEQALIGN takes as input a database of either i. single sequences, ii. sets of unaligned sequences or iii. sets of aligned sequences, e.g. a domain alignment file. A 'domain alignment file' contains a sequence alignment of domains belonging to the same SCOP or CATH family. The file is in clustal format annotated with domain family classification information. The files generated by using SCOPALIGN will contain a structure-based sequence alignment of domains of known structure only. Such alignments can be extended with sequence relatives (of unknown structure) by using SEQALIGN.

Directory with files

./

[-dhfindir]
(Parameter 1)

directory

This option specifies the location of DHF files (domain hits files) (input). A 'domain hits file' contains database hits (sequences) with domain classification information, in the DHF format (FASTA or EMBL-like). The hits are relatives to a SCOP or CATH family and are found from a search of a sequence database. Files containing hits retrieved by PSIBLAST are generated by using SEQSEARCH.

Directory

./

-amode

list

This option specifies which alignment algorithm to use.

1 | (CLUSTALW)
2 | (TCOFFEE (not yet implemented))

1

[-dafoutdir]
(Parameter 2)

outdir

This option specifies the location of DAF files (domain alignment files) (output). A 'domain alignment file' contains a sequence alignment of domains belonging to the same SCOP or CATH family. The file is in clustal format annotated with domain family classification information. The files generated by using SCOPALIGN will contain a structure-based sequence alignment of domains of known structure only. Such alignments can be extended with sequence relatives (of unknown structure) by using SEQALIGN.

Output directory

./

-logfile | outfile | This option specifies the name of log file for the build. The log file contains messages about any errors arising while SEQALIGN ran. | Output file | seqalign.log
Additional (Optional) qualifiers
-forcetype | boolean | This option specifies whether to force minimal domain classification data to be written to the output file in cases where singlet sequences were given as input file and no classification data was available | Boolean value Yes/No | No
Advanced (Unprompted) qualifiers
(none)
Associated qualifiers
"-dhfinpath" associated dirlist qualifiers
-extension | string | Default file extension | Any string | dhf
"-dafinpath" associated dirlist qualifiers
-extension | string | Default file extension | Any string | daf
"-dhfindir" associated directory qualifiers
-extension1 -extension_dhfindir | string | Default file extension | Any string | dhf
"-dafoutdir" associated outdir qualifiers
-extension2 -extension_dafoutdir | string | Default file extension | Any string | daf
"-logfile" associated outfile qualifiers
-odirectory | string | Output directory | Any string |
General qualifiers
-auto | boolean | Turn off prompts | Boolean value Yes/No | N
-stdout | boolean | Write first file to standard output | Boolean value Yes/No | N
-filter | boolean | Read first file from standard input, write first file to standard output | Boolean value Yes/No | N
-options | boolean | Prompt for standard and additional values | Boolean value Yes/No | N
-debug | boolean | Write debug output to program.dbg | Boolean value Yes/No | N
-verbose | boolean | Report some/full command line options | Boolean value Yes/No | Y
-help | boolean | Report command line options and exit. More information on associated and general qualifiers can be found with -help -verbose | Boolean value Yes/No | N
-warning | boolean | Report warnings | Boolean value Yes/No | Y
-error | boolean | Report errors | Boolean value Yes/No | Y
-fatal | boolean | Report fatal errors | Boolean value Yes/No | Y
-die | boolean | Report dying program messages | Boolean value Yes/No | Y
-version | boolean | Report version number and exit | Boolean value Yes/No | N

### 6.2 EXAMPLE SESSION

An example of interactive use of SEQALIGN is shown below. Here is a sample session with seqalign

    % seqalign
    Extend alignments (DAF file) with sequences (DHF file).
    Input mode
             1 : Single sequences
             2 : Multiple sequences (e.g. sequence set or alignment)
    Select mode of operation. [1]: 2
    Domain alignment directories [./]: ../domainalign-keep/daf
    Domain hits directory [./]: ../seqsearch-domalign
    Alignment algorithm option
             1 : CLUSTALW
             2 : TCOFFEE (not yet implemented)
    Select number. [1]: 1
    Domain alignment file output directory [./]:
    Domainatrix log output file [seqalign.log]:

     CLUSTAL 2.1 Multiple Sequence Alignments

    Sequence type explicitly set to Protein
    Sequence format is Pearson
    No. of seqs = 2
    Sequences assumed to be PROTEIN
    Sequence 1: d4at1b1_0     94 aa
    Sequence 2: d4at1d1_1     94 aa
    before profileInput
    Sequence format is Pearson
    No. of seqs in profile=40
    Total no. of seqs     =42
    Sequences assumed to be PROTEIN
    Sequence 3: Q9YBD5_1_95    95 aa
    Sequence 4: Q9UX07_1_93    93 aa
    Sequence 5: Q9KP65_1_92    92 aa
    Sequence 6: Q9K1K9_1_92    92 aa
    Sequence 7: Q9JWY6_1_92    92 aa
    Sequence 8: Q9HKM3_1_93    93 aa
    Sequence 9: Q9HHN3_1_93    93 aa
    Sequence 10: Q97FS4_1_90    90 aa
    Sequence 11: Q97B28_1_93    93 aa
    Sequence 12: Q970X3_1_91    91 aa
    Sequence 13: Q8ZTG2_1_93    93 aa
    Sequence 14: Q8ZB38_1_92    92 aa
    Sequence 15: Q8Z130_1_92    92 aa
    Sequence 16: Q8U374_1_94    94 aa
    Sequence 17: Q8TVB1_1_92    92 aa
    Sequence 18: Q8THL3_1_92    92 aa
    Sequence 19: Q8PXK6_1_92    92 aa
    Sequence 20: Q8K9H8_1_92    92 aa
    Sequence 21: Q8DCF7_1_92    92 aa
    Sequence 22: Q8D1W6_1_92    92 aa
    Sequence 23: Q8A9S4_1_92    92 aa
    Sequence 24: Q891I9_1_91    91 aa
    Sequence 25: Q87LF7_1_92    92 aa
    Sequence 26: Q83IL8_1_92    92 aa
    Sequence 27: Q7P144_1_92    92 aa
    Sequence 28: Q7MZ14_1_92    92 aa
    Sequence 29: Q7MX57_1_92    92 aa
    Sequence 30: Q7MHF0_1_92    92 aa
    Sequence 31: Q58801_1_91    91 aa
    Sequence 32: P96175_1_92    92 aa
    Sequence 33: P96111_1_98    98 aa
    Sequence 34: P77919_1_94    94 aa
    Sequence 35: P74766_1_93    93 aa
    Sequence 36: P57451_1_92    92 aa
    Sequence 37: P19936_1_92    92 aa
    Sequence 38: P08421_1_92    92 aa
    Sequence 39: P00478_1_92    92 aa
    Sequence 40: O58452_1_94    94 aa
    Sequence 41: O30129_1_93    93 aa
    Sequence 42: O26938_1_91    91 aa
    after profileInput
    Start of Pairwise alignments
    Aligning...

    Sequences (1:3) Aligned. Score:  35
    Sequences (1:4) Aligned. Score:  34
    Sequences (1:5) Aligned. Score:  65
    Sequences (1:6) Aligned. Score:  51
    Sequences (1:7) Aligned. Score:  50
    Sequences (1:8) Aligned. Score:  37
    Sequences (1:9) Aligned. Score:  45
    Sequences (1:10) Aligned. Score:  35
    Sequences (1:11) Aligned. Score:  40
    Sequences (1:12) Aligned. Score:  45
    Sequences (1:13) Aligned. Score:  34
    Sequences (1:14) Aligned. Score:  83
    Sequences (1:15) Aligned. Score:  92
    Sequences (1:16) Aligned. Score:  46
    Sequences (1:17) Aligned. Score:  36
    Sequences (1:18) Aligned. Score:  38
    Sequences (1:19) Aligned. Score:  38
    Sequences (1:20) Aligned. Score:  72
    Sequences (1:21) Aligned. Score:  63
    Sequences (1:22) Aligned. Score:  64
    Sequences (1:23) Aligned. Score:  39
    Sequences (1:24) Aligned. Score:  32
    Sequences (1:25) Aligned. Score:  66
    Sequences (1:26) Aligned. Score:  98
    Sequences (1:27) Aligned. Score:  65
    Sequences (1:28) Aligned. Score:  78
    Sequences (1:29) Aligned. Score:  45
    Sequences (1:30) Aligned. Score:  63
    Sequences (1:31) Aligned. Score:  37
    Sequences (1:32) Aligned. Score:  56
    Sequences (1:33) Aligned. Score:  32
    Sequences (1:34) Aligned. Score:  46
    Sequences (1:35) Aligned. Score:  37
    Sequences (1:36) Aligned. Score:  70
    Sequences (1:37) Aligned. Score:  83
    Sequences (1:38) Aligned. Score:  93
    Sequences (1:39) Aligned. Score:  100
    Sequences (1:40) Aligned. Score:  46
    Sequences (1:41) Aligned. Score:  35
    Sequences (1:42) Aligned. Score:  41
    Sequences (2:3) Aligned. Score:  37
    Sequences (2:4) Aligned. Score:  33
    Sequences (2:5) Aligned. Score:  65
    Sequences (2:6) Aligned. Score:  52
    Sequences (2:7) Aligned. Score:  51
    Sequences (2:8) Aligned. Score:  36
    Sequences (2:9) Aligned. Score:  45
    Sequences (2:10) Aligned. Score:  35
    Sequences (2:11) Aligned. Score:  40
    Sequences (2:12) Aligned. Score:  45
    Sequences (2:13) Aligned. Score:  33
    Sequences (2:14) Aligned. Score:  83
    Sequences (2:15) Aligned. Score:  92
    Sequences (2:16) Aligned. Score:  45
    Sequences (2:17) Aligned. Score:  36
    Sequences (2:18) Aligned. Score:  36
    Sequences (2:19) Aligned. Score:  36
    Sequences (2:20) Aligned. Score:  72
    Sequences (2:21) Aligned. Score:  63
    Sequences (2:22) Aligned. Score:  64
    Sequences (2:23) Aligned. Score:  39
    Sequences (2:24) Aligned. Score:  32
    Sequences (2:25) Aligned. Score:  66
    Sequences (2:26) Aligned. Score:  98
    Sequences (2:27) Aligned. Score:  65
    Sequences (2:28) Aligned. Score:  78
    Sequences (2:29) Aligned. Score:  45
    Sequences (2:30) Aligned. Score:  63
    Sequences (2:31) Aligned. Score:  37
    Sequences (2:32) Aligned. Score:  56
    Sequences (2:33) Aligned. Score:  31
    Sequences (2:34) Aligned. Score:  45
    Sequences (2:35) Aligned. Score:  36
    Sequences (2:36) Aligned. Score:  70
    Sequences (2:37) Aligned. Score:  83
    Sequences (2:38) Aligned. Score:  93
    Sequences (2:39) Aligned. Score:  100
    Sequences (2:40) Aligned. Score:  45
    Sequences (2:41) Aligned. Score:  34
    Sequences (2:42) Aligned. Score:  41
    Sequences (3:4) Aligned. Score:  51
    Sequences (3:5) Aligned. Score:  41
    Sequences (3:6) Aligned. Score:  42
    Sequences (3:7) Aligned. Score:  42
    Sequences (3:8) Aligned. Score:  36
    Sequences (3:9) Aligned. Score:  45
    Sequences (3:10) Aligned. Score:  42
    Sequences (3:11) Aligned. Score:  38
    Sequences (3:12) Aligned. Score:  51
    Sequences (3:13) Aligned. Score:  48
    Sequences (3:14) Aligned. Score:  40
    Sequences (3:15) Aligned. Score:  39
    Sequences (3:16) Aligned. Score:  41
    Sequences (3:17) Aligned. Score:  44
    Sequences (3:18) Aligned. Score:  39
    Sequences (3:19) Aligned. Score:  42
    Sequences (3:20) Aligned. Score:  41
    Sequences (3:21) Aligned. Score:  42
    Sequences (3:22) Aligned. Score:  38
    Sequences (3:23) Aligned. Score:  35
    Sequences (3:24) Aligned. Score:  43
    Sequences (3:25) Aligned. Score:  41
    Sequences (3:26) Aligned. Score:  39
    Sequences (3:27) Aligned. Score:  38
    Sequences (3:28) Aligned. Score:  41
    Sequences (3:29) Aligned. Score:  40
    Sequences (3:30) Aligned. Score:  42
    Sequences (3:31) Aligned. Score:  42
    Sequences (3:32) Aligned. Score:  36
    Sequences (3:33) Aligned. Score:  26
    Sequences (3:34) Aligned. Score:  41
    Sequences (3:35) Aligned. Score:  49
    Sequences (3:36) Aligned. Score:  43
    Sequences (3:37) Aligned. Score:  41
    Sequences (3:38) Aligned. Score:  39
    Sequences (3:39) Aligned. Score:  39
    Sequences (3:40) Aligned. Score:  41
    Sequences (3:41) Aligned. Score:  43
    Sequences (3:42) Aligned. Score:  43
    Sequences (4:5) Aligned. Score:  43
    Sequences (4:6) Aligned. Score:  45
    Sequences (4:7) Aligned. Score:  45
    Sequences (4:8) Aligned. Score:  48
    Sequences (4:9) Aligned. Score:  56
    Sequences (4:10) Aligned. Score:  37
    Sequences (4:11) Aligned. Score:  52
    Sequences (4:12) Aligned. Score:  80
    Sequences (4:13) Aligned. Score:  67
    Sequences (4:14) Aligned. Score:  39
    Sequences (4:15) Aligned. Score:  35
    Sequences (4:16) Aligned. Score:  56
    Sequences (4:17) Aligned. Score:  48
    Sequences (4:18) Aligned. Score:  50
    Sequences (4:19) Aligned. Score:  50
    Sequences (4:20) Aligned. Score:  33
    Sequences (4:21) Aligned. Score:  46
    Sequences (4:22) Aligned. Score:  35
    Sequences (4:23) Aligned. Score:  40
    Sequences (4:24) Aligned. Score:  45
    Sequences (4:25) Aligned. Score:  45
    Sequences (4:26) Aligned. Score:  36
    Sequences (4:27) Aligned. Score:  39
    Sequences (4:28) Aligned. Score:  36
    Sequences (4:29) Aligned. Score:  45
    Sequences (4:30) Aligned. Score:  46
    Sequences (4:31) Aligned. Score:  48
    Sequences (4:32) Aligned. Score:  39
    Sequences (4:33) Aligned. Score:  31
    Sequences (4:34) Aligned. Score:  59
    Sequences (4:35) Aligned. Score:  72
    Sequences (4:36) Aligned. Score:  35
    Sequences (4:37) Aligned. Score:  38
    Sequences (4:38) Aligned. Score:  36
    Sequences (4:39) Aligned. Score:  36
    Sequences (4:40) Aligned. Score:  59
    Sequences (4:41) Aligned. Score:  52
    Sequences (4:42) Aligned. Score:  51
    Sequences (5:6) Aligned. Score:  51
    Sequences (5:7) Aligned. Score:  50
    Sequences (5:8) Aligned. Score:  38
    Sequences (5:9) Aligned. Score:  38
    Sequences (5:10) Aligned. Score:  36
    Sequences (5:11) Aligned. Score:  38
    Sequences (5:12) Aligned. Score:  46
    Sequences (5:13) Aligned. Score:  41
    Sequences (5:14) Aligned. Score:  68
    Sequences (5:15) Aligned. Score:  64
    Sequences (5:16) Aligned. Score:  48
    Sequences (5:17) Aligned. Score:  39
    Sequences (5:18) Aligned. Score:  38
    Sequences (5:19) Aligned. Score:  35
    Sequences (5:20) Aligned. Score:  58
    Sequences (5:21) Aligned. Score:  90
    Sequences (5:22) Aligned. Score:  60
    Sequences (5:23) Aligned. Score:  40
    Sequences (5:24) Aligned. Score:  39
    Sequences (5:25) Aligned. Score:  91
    Sequences (5:26) Aligned. Score:  65
    Sequences (5:27) Aligned. Score:  63
    Sequences (5:28) Aligned. Score:  69
    Sequences (5:29) Aligned. Score:  44
    Sequences (5:30) Aligned. Score:  90
    Sequences (5:31) Aligned. Score:  41
    Sequences (5:32) Aligned. Score:  57
    Sequences (5:33) Aligned. Score:  31
    Sequences (5:34) Aligned. Score:  48
    Sequences (5:35) Aligned. Score:  45
    Sequences (5:36) Aligned. Score:  58
    Sequences (5:37) Aligned. Score:  68
    Sequences (5:38) Aligned. Score:  65
    Sequences (5:39) Aligned. Score:  65
    Sequences (5:40) Aligned. Score:  50
    Sequences (5:41) Aligned. Score:  42
    Sequences (5:42) Aligned. Score:  42
    Sequences (6:7) Aligned. Score:  98
    Sequences (6:8) Aligned. Score:  33
    Sequences (6:9) Aligned. Score:  40
    Sequences (6:10) Aligned. Score:  38
    Sequences (6:11) Aligned. Score:  36
    Sequences (6:12) Aligned. Score:  45
    Sequences (6:13) Aligned. Score:  45
    Sequences (6:14) Aligned. Score:  53
    Sequences (6:15) Aligned. Score:  52
    Sequences (6:16) Aligned. Score:  47
    Sequences (6:17) Aligned. Score:  36
    Sequences (6:18) Aligned. Score:  40
    Sequences (6:19) Aligned. Score:  40
    Sequences (6:20) Aligned. Score:  44
    Sequences (6:21) Aligned. Score:  48
    Sequences (6:22) Aligned. Score:  51
    Sequences (6:23) Aligned. Score:  36
    Sequences (6:24) Aligned. Score:  35
    Sequences (6:25) Aligned. Score:  50
    Sequences (6:26) Aligned. Score:  52
    Sequences (6:27) Aligned. Score:  60
    Sequences (6:28) Aligned. Score:  51
    Sequences (6:29) Aligned. Score:  36
    Sequences (6:30) Aligned. Score:  48
    Sequences (6:31) Aligned. Score:  39
    Sequences (6:32) Aligned. Score:  53
    Sequences (6:33) Aligned. Score:  33
    Sequences (6:34) Aligned. Score:  48
    Sequences (6:35) Aligned. Score:  40
    Sequences (6:36) Aligned. Score:  45
    Sequences (6:37) Aligned. Score:  52
    Sequences (6:38) Aligned. Score:  51
    Sequences (6:39) Aligned. Score:  52
    Sequences (6:40) Aligned. Score:  47
    Sequences (6:41) Aligned. Score:  35
    Sequences (6:42) Aligned. Score:  41
    Sequences (7:8) Aligned. Score:  32
    Sequences (7:9) Aligned. Score:  40
    Sequences (7:10) Aligned. Score:  38
    Sequences (7:11) Aligned. Score:  35
    Sequences (7:12) Aligned. Score:  45
    Sequences (7:13) Aligned. Score:  44
    Sequences (7:14) Aligned. Score:  52
    Sequences (7:15) Aligned. Score:  51
    Sequences (7:16) Aligned. Score:  47
    Sequences (7:17) Aligned. Score:  36
    Sequences (7:18) Aligned. Score:  40
    Sequences (7:19) Aligned. Score:  40
    Sequences (7:20) Aligned. Score:  44
    Sequences (7:21) Aligned. Score:  48
    Sequences (7:22) Aligned. Score:  50
    Sequences (7:23) Aligned. Score:  36
    Sequences (7:24) Aligned. Score:  35
    Sequences (7:25) Aligned. Score:  48
    Sequences (7:26) Aligned. Score:  51
    Sequences (7:27) Aligned. Score:  59
    Sequences (7:28) Aligned. Score:  50
    Sequences (7:29) Aligned. Score:  36
    Sequences (7:30) Aligned. Score:  48
    Sequences (7:31) Aligned. Score:  38
    Sequences (7:32) Aligned. Score:  52
    Sequences (7:33) Aligned. Score:  32
    Sequences (7:34) Aligned. Score:  48
    Sequences (7:35) Aligned. Score:  40
    Sequences (7:36) Aligned. Score:  45
    Sequences (7:37) Aligned. Score:  51
    Sequences (7:38) Aligned. Score:  50
    Sequences (7:39) Aligned. Score:  51
    Sequences (7:40) Aligned. Score:  46
    Sequences (7:41) Aligned. Score:  35
    Sequences (7:42) Aligned. Score:  41
    Sequences (8:9) Aligned. Score:  43
    Sequences (8:10) Aligned. Score:  36
    Sequences (8:11) Aligned. Score:  77
    Sequences (8:12) Aligned. Score:  48
    Sequences (8:13) Aligned. Score:  45
    Sequences (8:14) Aligned. Score:  34
    Sequences (8:15) Aligned. Score:  36
    Sequences (8:16) Aligned. Score:  50
    Sequences (8:17) Aligned. Score:  41
    Sequences (8:18) Aligned. Score:  42
    Sequences (8:19) Aligned. Score:  41
    Sequences (8:20) Aligned. Score:  32
    Sequences (8:21) Aligned. Score:  36
    Sequences (8:22) Aligned. Score:  33
    Sequences (8:23) Aligned. Score:  38
    Sequences (8:24) Aligned. Score:  45
    Sequences (8:25) Aligned. Score:  39
    Sequences (8:26) Aligned. Score:  39
    Sequences (8:27) Aligned. Score:  34
    Sequences (8:28) Aligned. Score:  39
    Sequences (8:29) Aligned. Score:  41
    Sequences (8:30) Aligned. Score:  36
    Sequences (8:31) Aligned. Score:  46
    Sequences (8:32) Aligned. Score:  34
    Sequences (8:33) Aligned. Score:  36
    Sequences (8:34) Aligned. Score:  51
    Sequences (8:35) Aligned. Score:  45
    Sequences (8:36) Aligned. Score:  33
    Sequences (8:37) Aligned. Score:  35
    Sequences (8:38) Aligned. Score:  36
    Sequences (8:39) Aligned. Score:  39
    Sequences (8:40) Aligned. Score:  51
    Sequences (8:41) Aligned. Score:  49
    Sequences (8:42) Aligned. Score:  42
    Sequences (9:10) Aligned. Score:  32
    Sequences (9:11) Aligned. Score:  51
    Sequences (9:12) Aligned. Score:  57
    Sequences (9:13) Aligned. Score:  55
    Sequences (9:14) Aligned. Score:  42
    Sequences (9:15) Aligned. Score:  41
    Sequences (9:16) Aligned. Score:  52
    Sequences (9:17) Aligned. Score:  47
    Sequences (9:18) Aligned. Score:  51
    Sequences (9:19) Aligned. Score:  51
    Sequences (9:20) Aligned. Score:  34
    Sequences (9:21) Aligned. Score:  38
    Sequences (9:22) Aligned. Score:  38
    Sequences (9:23) Aligned. Score:  40
    Sequences (9:24) Aligned. Score:  36
    Sequences (9:25) Aligned. Score:  38
    Sequences (9:26) Aligned. Score:  44
    Sequences (9:27) Aligned. Score:  35
    Sequences (9:28) Aligned. Score:  39
    Sequences (9:29) Aligned. Score:  42
    Sequences (9:30) Aligned. Score:  38
    Sequences (9:31) Aligned. Score:  49
    Sequences (9:32) Aligned. Score:  35
    Sequences (9:33) Aligned. Score:  31
    Sequences (9:34) Aligned. Score:  52
    Sequences (9:35) Aligned. Score:  53
    Sequences (9:36) Aligned. Score:  34
    Sequences (9:37) Aligned. Score:  40
    Sequences (9:38) Aligned. Score:  41
    Sequences (9:39) Aligned. Score:  45
    Sequences (9:40) Aligned. Score:  52
    Sequences (9:41) Aligned. Score:  49
    Sequences (9:42) Aligned. Score:  54
    Sequences (10:11) Aligned. Score:  34
    Sequences (10:12) Aligned. Score:  43
    Sequences (10:13) Aligned. Score:  35
    Sequences (10:14) Aligned. Score:  36
    Sequences (10:15) Aligned. Score:  36
    Sequences (10:16) Aligned. Score:  40
    Sequences (10:17) Aligned. Score:  32
    Sequences (10:18) Aligned. Score:  33
    Sequences (10:19) Aligned. Score:  31
    Sequences (10:20) Aligned. Score:  40
    Sequences (10:21) Aligned. Score:  37
    Sequences (10:22) Aligned. Score:  35
    Sequences (10:23) Aligned. Score:  28
    Sequences (10:24) Aligned. Score:  63
    Sequences (10:25) Aligned. Score:  36
    Sequences (10:26) Aligned. Score:  35
    Sequences (10:27) Aligned. Score:  37
    Sequences (10:28) Aligned. Score:  36
    Sequences (10:29) Aligned. Score:  32
    Sequences (10:30) Aligned. Score:  37
    Sequences (10:31) Aligned. Score:  34
    Sequences (10:32) Aligned. Score:  40
    Sequences (10:33) Aligned. Score:  28
    Sequences (10:34) Aligned. Score:  42
    Sequences (10:35) Aligned. Score:  38
    Sequences (10:36) Aligned. Score:  37
    Sequences (10:37) Aligned. Score:  35
    Sequences (10:38) Aligned. Score:  35
    Sequences (10:39) Aligned. Score:  35
    Sequences (10:40) Aligned. Score:  36
    Sequences (10:41) Aligned. Score:  35
    Sequences (10:42) Aligned. Score:  35
    Sequences (11:12) Aligned. Score:  53
    Sequences (11:13) Aligned. Score:  51
    Sequences (11:14) Aligned. Score:  38
    Sequences (11:15) Aligned. Score:  39
    Sequences (11:16) Aligned. Score:  49
    Sequences (11:17) Aligned. Score:  43
    Sequences (11:18) Aligned. Score:  48
    Sequences (11:19) Aligned. Score:  46
    Sequences (11:20) Aligned. Score:  34
    Sequences (11:21) Aligned. Score:  36
    Sequences (11:22) Aligned. Score:  38
    Sequences (11:23) Aligned. Score:  36
    Sequences (11:24) Aligned. Score:  43
    Sequences (11:25) Aligned. Score:  39
    Sequences (11:26) Aligned. Score:  41
    Sequences (11:27) Aligned. Score:  38
    Sequences (11:28) Aligned. Score:  38
    Sequences (11:29) Aligned. Score:  41
    Sequences (11:30) Aligned. Score:  36
    Sequences (11:31) Aligned. Score:  45
    Sequences (11:32) Aligned. Score:  39
    Sequences (11:33) Aligned. Score:  38
    Sequences (11:34) Aligned. Score:  50
    Sequences (11:35) Aligned. Score:  46
    Sequences (11:36) Aligned. Score:  34
    Sequences (11:37) Aligned. Score:  36
    Sequences (11:38) Aligned. Score:  39
    Sequences (11:39) Aligned. Score:  41
    Sequences (11:40) Aligned. Score:  50
    Sequences (11:41) Aligned. Score:  56
    Sequences (11:42) Aligned. Score:  50
    Sequences (12:13) Aligned. Score:  71
    Sequences (12:14) Aligned. Score:  47
    Sequences (12:15) Aligned. Score:  43
    Sequences (12:16) Aligned. Score:  62
    Sequences (12:17) Aligned. Score:  53
    Sequences (12:18) Aligned. Score:  54
    Sequences (12:19) Aligned. Score:  51
    Sequences (12:20) Aligned. Score:  40
    Sequences (12:21) Aligned. Score:  45
    Sequences (12:22) Aligned. Score:  43
    Sequences (12:23) Aligned. Score:  47
    Sequences (12:24) Aligned. Score:  47
    Sequences (12:25) Aligned. Score:  45
    Sequences (12:26) Aligned. Score:  45
    Sequences (12:27) Aligned. Score:  48
    Sequences (12:28) Aligned. Score:  45
    Sequences (12:29) Aligned. Score:  46
    Sequences (12:30) Aligned. Score:  45
    Sequences (12:31) Aligned. Score:  52
    Sequences (12:32) Aligned. Score:  39
    Sequences (12:33) Aligned. Score:  34
    Sequences (12:34) Aligned. Score:  60
    Sequences (12:35) Aligned. Score:  79
    Sequences (12:36) Aligned. Score:  40
    Sequences (12:37) Aligned. Score:  46
    Sequences (12:38) Aligned. Score:  45
    Sequences (12:39) Aligned. Score:  45
    Sequences (12:40) Aligned. Score:  61
    Sequences (12:41) Aligned. Score:  60
    Sequences (12:42) Aligned. Score:  54
    Sequences (13:14) Aligned. Score:  40
    Sequences (13:15) Aligned. Score:  40
    Sequences (13:16) Aligned. Score:  64
    Sequences (13:17) Aligned. Score:  51
    Sequences (13:18) Aligned. Score:  59
    Sequences (13:19) Aligned. Score:  57
    Sequences (13:20) Aligned. Score:  38
    Sequences (13:21) Aligned. Score:  40
    Sequences (13:22) Aligned. Score:  39
    Sequences (13:23) Aligned. Score:  45
    Sequences (13:24) Aligned. Score:  39
    Sequences (13:25) Aligned. Score:  41
    Sequences (13:26) Aligned. Score:  38
    Sequences (13:27) Aligned. Score:  45
    Sequences (13:28) Aligned. Score:  41
    Sequences (13:29) Aligned. Score:  38
    Sequences (13:30) Aligned. Score:  40
    Sequences (13:31) Aligned. Score:  56
    Sequences (13:32) Aligned. Score:  39
    Sequences (13:33) Aligned. Score:  33
    Sequences (13:34) Aligned. Score:  62
    Sequences (13:35) Aligned. Score:  66
    Sequences (13:36) Aligned. Score:  40
    Sequences (13:37) Aligned. Score:  39
    Sequences (13:38) Aligned. Score:  40
    Sequences (13:39) Aligned. Score:  36
    Sequences (13:40) Aligned. Score:  65
    Sequences (13:41) Aligned. Score:  56
    Sequences (13:42) Aligned. Score:  54
    Sequences (14:15) Aligned. Score:  83
    Sequences (14:16) Aligned. Score:  46
    Sequences (14:17) Aligned. Score:  35
    Sequences (14:18) Aligned. Score:  33
    Sequences (14:19) Aligned. Score:  32
    Sequences (14:20) Aligned. Score:  68
    Sequences (14:21) Aligned. Score:  66
    Sequences (14:22) Aligned. Score:  67
    Sequences (14:23) Aligned. Score:  41
    Sequences (14:24) Aligned. Score:  32
    Sequences (14:25) Aligned. Score:  69
    Sequences (14:26) Aligned. Score:  83
    Sequences (14:27) Aligned. Score:  67
    Sequences (14:28) Aligned. Score:  86
    Sequences (14:29) Aligned. Score:  45
    Sequences (14:30) Aligned. Score:  66
    Sequences (14:31) Aligned. Score:  36
    Sequences (14:32) Aligned. Score:  59
    Sequences (14:33) Aligned. Score:  30
    Sequences (14:34) Aligned. Score:  47
    Sequences (14:35) Aligned. Score:  43
    Sequences (14:36) Aligned. Score:  69
    Sequences (14:37) Aligned. Score:  93
    Sequences (14:38) Aligned. Score:  84
    Sequences (14:39) Aligned. Score:  83
    Sequences (14:40) Aligned. Score:  47
    Sequences (14:41) Aligned. Score:  39
    Sequences (14:42) Aligned. Score:  38
    Sequences (15:16) Aligned. Score:  48
    Sequences (15:17) Aligned. Score:  36
    Sequences (15:18) Aligned. Score:  35
    Sequences (15:19) Aligned. Score:  35
    Sequences (15:20) Aligned. Score:  71
    Sequences (15:21) Aligned. Score:  64
    Sequences (15:22) Aligned. Score:  64
    Sequences (15:23) Aligned. Score:  41
    Sequences (15:24) Aligned. Score:  32
    Sequences (15:25) Aligned. Score:  64
    Sequences (15:26) Aligned. Score:  93
    Sequences (15:27) Aligned. Score:  66
    Sequences (15:28) Aligned. Score:  80
    Sequences (15:29) Aligned. Score:  45
    Sequences (15:30) Aligned. Score:  64
    Sequences (15:31) Aligned. Score:  37
    Sequences (15:32) Aligned. Score:  58
    Sequences (15:33) Aligned. Score:  30
    Sequences (15:34) Aligned. Score:  48
    Sequences (15:35) Aligned. Score:  41
    Sequences (15:36) Aligned. Score:  71
    Sequences (15:37) Aligned. Score:  83
    Sequences (15:38) Aligned. Score:  98
    Sequences (15:39) Aligned. Score:  92
    Sequences (15:40) Aligned. Score:  48
    Sequences (15:41) Aligned. Score:  42
    Sequences (15:42) Aligned. Score:  40
    Sequences (16:17) Aligned. Score:  55
    Sequences (16:18) Aligned. Score:  47
    Sequences (16:19) Aligned. Score:  51
    Sequences (16:20) Aligned. Score:  44
    Sequences (16:21) Aligned. Score:  48
    Sequences (16:22) Aligned. Score:  41
    Sequences (16:23) Aligned. Score:  50
    Sequences (16:24) Aligned. Score:  42
    Sequences (16:25) Aligned. Score:  48
    Sequences (16:26) Aligned. Score:  50
    Sequences (16:27) Aligned. Score:  48
    Sequences (16:28) Aligned. Score:  45
    Sequences (16:29) Aligned. Score:  47
    Sequences (16:30) Aligned. Score:  48
    Sequences (16:31) Aligned. Score:  54
    Sequences (16:32) Aligned. Score:  42
    Sequences (16:33) Aligned. Score:  34
    Sequences (16:34) Aligned. Score:  91
    Sequences (16:35) Aligned. Score:  56
    Sequences (16:36) Aligned. Score:  48
    Sequences (16:37) Aligned. Score:  46
    Sequences (16:38) Aligned. Score:  50
    Sequences (16:39) Aligned. Score:  48
    Sequences (16:40) Aligned. Score:  92
    Sequences (16:41) Aligned. Score:  60
    Sequences (16:42) Aligned. Score:  54
    Sequences (17:18) Aligned. Score:  42
    Sequences (17:19) Aligned. Score:  43
    Sequences (17:20) Aligned. Score:  33
    Sequences (17:21) Aligned. Score:  39
    Sequences (17:22) Aligned. Score:  32
    Sequences (17:23) Aligned. Score:  35
    Sequences (17:24) Aligned. Score:  32
    Sequences (17:25) Aligned. Score:  38
    Sequences (17:26) Aligned. Score:  38
    Sequences (17:27) Aligned. Score:  39
    Sequences (17:28) Aligned. Score:  35
    Sequences (17:29) Aligned. Score:  41
    Sequences (17:30) Aligned. Score:  39
    Sequences (17:31) Aligned. Score:  46
    Sequences (17:32) Aligned. Score:  35
    Sequences (17:33) Aligned. Score:  34
    Sequences (17:34) Aligned. Score:  56
    Sequences (17:35) Aligned. Score:  47
    Sequences (17:36) Aligned. Score:  36
    Sequences (17:37) Aligned. Score:  35
    Sequences (17:38) Aligned. Score:  38
    Sequences (17:39) Aligned. Score:  36
    Sequences (17:40) Aligned. Score:  55
    Sequences (17:41) Aligned. Score:  52
    Sequences (17:42) Aligned. Score:  42
    Sequences (18:19) Aligned. Score:  90
    Sequences (18:20) Aligned. Score:  32
    Sequences (18:21) Aligned. Score:  36
    Sequences (18:22) Aligned. Score:  31
    Sequences (18:23) Aligned. Score:  36
    Sequences (18:24) Aligned. Score:  32
    Sequences (18:25) Aligned. Score:  36
    Sequences (18:26) Aligned. Score:  36
    Sequences (18:27) Aligned. Score:  39
    Sequences (18:28) Aligned. Score:  34
    Sequences (18:29) Aligned. Score:  42
    Sequences (18:30) Aligned. Score:  36
    Sequences (18:31) Aligned. Score:  46
    Sequences (18:32) Aligned. Score:  34
    Sequences (18:33) Aligned. Score:  33
    Sequences (18:34) Aligned. Score:  47
    Sequences (18:35) Aligned. Score:  51
    Sequences (18:36) Aligned. Score:  32
    Sequences (18:37) Aligned. Score:  34
    Sequences (18:38) Aligned. Score:  35
    Sequences (18:39) Aligned. Score:  35
    Sequences (18:40) Aligned. Score:  53
    Sequences (18:41) Aligned. Score:  57
    Sequences (18:42) Aligned. Score:  48
    Sequences (19:20) Aligned. Score:  32
    Sequences (19:21) Aligned. Score:  35
    Sequences (19:22) Aligned. Score:  30
    Sequences (19:23) Aligned. Score:  38
    Sequences (19:24) Aligned. Score:  35
    Sequences (19:25) Aligned. Score:  34
    Sequences (19:26) Aligned. Score:  35
    Sequences (19:27) Aligned. Score:  36
    Sequences (19:28) Aligned. Score:  33
    Sequences (19:29) Aligned. Score:  41
    Sequences (19:30) Aligned. Score:  35
    Sequences (19:31) Aligned. Score:  45
    Sequences (19:32) Aligned. Score:  36
    Sequences (19:33) Aligned. Score:  32
    Sequences (19:34) Aligned. Score:  50
    Sequences (19:35) Aligned. Score:  50
    Sequences (19:36) Aligned. Score:  33
    Sequences (19:37) Aligned. Score:  33
    Sequences (19:38) Aligned. Score:  35
    Sequences (19:39) Aligned. Score:  34
    Sequences (19:40) Aligned. Score:  52
    Sequences (19:41) Aligned. Score:  54
    Sequences (19:42) Aligned. Score:  46
    Sequences (20:21) Aligned. Score:  56
    Sequences (20:22) Aligned. Score:  59
    Sequences (20:23) Aligned. Score:  42
    Sequences (20:24) Aligned. Score:  36
    Sequences (20:25) Aligned. Score:  57
    Sequences (20:26) Aligned. Score:  71
    Sequences (20:27) Aligned. Score:  53
    Sequences (20:28) Aligned. Score:  69
    Sequences (20:29) Aligned. Score:  40
    Sequences (20:30) Aligned. Score:  56
    Sequences (20:31) Aligned. Score:  34
    Sequences (20:32) Aligned. Score:  52
    Sequences (20:33) Aligned. Score:  28
    Sequences (20:34) Aligned. Score:  43
    Sequences (20:35) Aligned. Score:  41
    Sequences (20:36) Aligned. Score:  86
    Sequences (20:37) Aligned. Score:  68
    Sequences (20:38) Aligned. Score:  70
    Sequences (20:39) Aligned. Score:  72
    Sequences (20:40) Aligned. Score:  43
    Sequences (20:41) Aligned. Score:  38
    Sequences (20:42) Aligned. Score:  36
    Sequences (21:22) Aligned. Score:  60
    Sequences (21:23) Aligned. Score:  40
    Sequences (21:24) Aligned. Score:  41
    Sequences (21:25) Aligned. Score:  95
    Sequences (21:26) Aligned. Score:  64
    Sequences (21:27) Aligned. Score:  59
    Sequences (21:28) Aligned. Score:  67
    Sequences (21:29) Aligned. Score:  44
    Sequences (21:30) Aligned. Score:  100
    Sequences (21:31) Aligned. Score:  40
    Sequences (21:32) Aligned. Score:  55
    Sequences (21:33) Aligned. Score:  29
    Sequences (21:34) Aligned. Score:  50
    Sequences (21:35) Aligned. Score:  43
    Sequences (21:36) Aligned. Score:  57
    Sequences (21:37) Aligned. Score:  66
    Sequences (21:38) Aligned. Score:  65
    Sequences (21:39) Aligned. Score:  63
    Sequences (21:40) Aligned. Score:  50
    Sequences (21:41) Aligned. Score:  42
    Sequences (21:42) Aligned. Score:  42
    Sequences (22:23) Aligned. Score:  34
    Sequences (22:24) Aligned. Score:  29
    Sequences (22:25) Aligned. Score:  60
    Sequences (22:26) Aligned. Score:  63
    Sequences (22:27) Aligned. Score:  60
    Sequences (22:28) Aligned. Score:  69
    Sequences (22:29) Aligned. Score:  35
    Sequences (22:30) Aligned. Score:  60
    Sequences (22:31) Aligned. Score:  32
    Sequences (22:32) Aligned. Score:  54
    Sequences (22:33) Aligned. Score:  33
    Sequences (22:34) Aligned. Score:  42
    Sequences (22:35) Aligned. Score:  39
    Sequences (22:36) Aligned. Score:  56
    Sequences (22:37) Aligned. Score:  66
    Sequences (22:38) Aligned. Score:  65
    Sequences (22:39) Aligned. Score:  64
    Sequences (22:40) Aligned. Score:  42
    Sequences (22:41) Aligned. Score:  34
    Sequences (22:42) Aligned. Score:  35
    Sequences (23:24) Aligned. Score:  34
    Sequences (23:25) Aligned. Score:  40
    Sequences (23:26) Aligned. Score:  40
    Sequences (23:27) Aligned. Score:  35
    Sequences (23:28) Aligned. Score:  41
    Sequences (23:29) Aligned. Score:  59
    Sequences (23:30) Aligned. Score:  40
    Sequences (23:31) Aligned. Score:  41
    Sequences (23:32) Aligned. Score:  33
    Sequences (23:33) Aligned. Score:  30
    Sequences (23:34) Aligned. Score:  46
    Sequences (23:35) Aligned. Score:  47
    Sequences (23:36) Aligned. Score:  44
    Sequences (23:37) Aligned. Score:  41
    Sequences (23:38) Aligned. Score:  40
    Sequences (23:39) Aligned. Score:  39
    Sequences (23:40) Aligned. Score:  47
    Sequences (23:41) Aligned. Score:  39
    Sequences (23:42) Aligned. Score:  40
    Sequences (24:25) Aligned. Score:  40
    Sequences (24:26) Aligned. Score:  31
    Sequences (24:27) Aligned. Score:  34
    Sequences (24:28) Aligned. Score:  34
    Sequences (24:29) Aligned. Score:  32
    Sequences (24:30) Aligned. Score:  41
    Sequences (24:31) Aligned. Score:  43
    Sequences (24:32) Aligned. Score:  39
    Sequences (24:33) Aligned. Score:  25
    Sequences (24:34) Aligned. Score:  41
    Sequences (24:35) Aligned. Score:  46
    Sequences (24:36) Aligned. Score:  35
    Sequences (24:37) Aligned. Score:  34
    Sequences (24:38) Aligned. Score:  31
    Sequences (24:39) Aligned. Score:  32
    Sequences (24:40) Aligned. Score:  43
    Sequences (24:41) Aligned. Score:  39
    Sequences (24:42) Aligned. Score:  41
    Sequences (25:26) Aligned. Score:  67
    Sequences (25:27) Aligned. Score:  61
    Sequences (25:28) Aligned. Score:  68
    Sequences (25:29) Aligned. Score:  44
    Sequences (25:30) Aligned. Score:  95
    Sequences (25:31) Aligned. Score:  41
    Sequences (25:32) Aligned. Score:  56
    Sequences (25:33) Aligned. Score:  31
    Sequences (25:34) Aligned. Score:  48
    Sequences (25:35) Aligned. Score:  44
    Sequences (25:36) Aligned. Score:  58
    Sequences (25:37) Aligned. Score:  69
    Sequences (25:38) Aligned. Score:  65
    Sequences (25:39) Aligned. Score:  66
    Sequences (25:40) Aligned. Score:  51
    Sequences (25:41) Aligned. Score:  42
    Sequences (25:42) Aligned. Score:  41
    Sequences (26:27) Aligned. Score:  66
    Sequences (26:28) Aligned. Score:  78
    Sequences (26:29) Aligned. Score:  46
    Sequences (26:30) Aligned. Score:  64
    Sequences (26:31) Aligned. Score:  38
    Sequences (26:32) Aligned. Score:  56
    Sequences (26:33) Aligned. Score:  32
    Sequences (26:34) Aligned. Score:  50
    Sequences (26:35) Aligned. Score:  41
    Sequences (26:36) Aligned. Score:  71
    Sequences (26:37) Aligned. Score:  83
    Sequences (26:38) Aligned. Score:  94
    Sequences (26:39) Aligned. Score:  98
    Sequences (26:40) Aligned. Score:  50
    Sequences (26:41) Aligned. Score:  41
    Sequences (26:42) Aligned. Score:  41
    Sequences (27:28) Aligned. Score:  65
    Sequences (27:29) Aligned. Score:  42
    Sequences (27:30) Aligned. Score:  59
    Sequences (27:31) Aligned. Score:  34
    Sequences (27:32) Aligned. Score:  65
    Sequences (27:33) Aligned. Score:  29
    Sequences (27:34) Aligned. Score:  48
    Sequences (27:35) Aligned. Score:  42
    Sequences (27:36) Aligned. Score:  55
    Sequences (27:37) Aligned. Score:  67
    Sequences (27:38) Aligned. Score:  67
    Sequences (27:39) Aligned. Score:  65
    Sequences (27:40) Aligned. Score:  48
    Sequences (27:41) Aligned. Score:  39
    Sequences (27:42) Aligned. Score:  39
    Sequences (28:29) Aligned. Score:  47
    Sequences (28:30) Aligned. Score:  67
    Sequences (28:31) Aligned. Score:  35
    Sequences (28:32) Aligned. Score:  60
    Sequences (28:33) Aligned. Score:  31
    Sequences (28:34) Aligned. Score:  46
    Sequences (28:35) Aligned. Score:  41
    Sequences (28:36) Aligned. Score:  67
    Sequences (28:37) Aligned. Score:  85
    Sequences (28:38) Aligned. Score:  81
    Sequences (28:39) Aligned. Score:  78
    Sequences (28:40) Aligned. Score:  45
    Sequences (28:41) Aligned. Score:  39
    Sequences (28:42) Aligned. Score:  38
    Sequences (29:30) Aligned. Score:  44
    Sequences (29:31) Aligned. Score:  38
    Sequences (29:32) Aligned. Score:  40
    Sequences (29:33) Aligned. Score:  35
    Sequences (29:34) Aligned. Score:  50
    Sequences (29:35) Aligned. Score:  45
    Sequences (29:36) Aligned. Score:  42
    Sequences (29:37) Aligned. Score:  46
    Sequences (29:38) Aligned. Score:  46
    Sequences (29:39) Aligned. Score:  45
    Sequences (29:40) Aligned. Score:  48
    Sequences (29:41) Aligned. Score:  40
    Sequences (29:42) Aligned. Score:  41
    Sequences (30:31) Aligned. Score:  40
    Sequences (30:32) Aligned. Score:  55
    Sequences (30:33) Aligned. Score:  29
    Sequences (30:34) Aligned. Score:  50
    Sequences (30:35) Aligned. Score:  43
    Sequences (30:36) Aligned. Score:  57
    Sequences (30:37) Aligned. Score:  66
    Sequences (30:38) Aligned. Score:  65
    Sequences (30:39) Aligned. Score:  63
    Sequences (30:40) Aligned. Score:  50
    Sequences (30:41) Aligned. Score:  42
    Sequences (30:42) Aligned. Score:  42
    Sequences (31:32) Aligned. Score:  34
    Sequences (31:33) Aligned. Score:  35
    Sequences (31:34) Aligned. Score:  56
    Sequences (31:35) Aligned. Score:  50
    Sequences (31:36) Aligned. Score:  35
    Sequences (31:37) Aligned. Score:  34
    Sequences (31:38) Aligned. Score:  37
    Sequences (31:39) Aligned. Score:  37
    Sequences (31:40) Aligned. Score:  57
    Sequences (31:41) Aligned. Score:  52
    Sequences (31:42) Aligned. Score:  50
    Sequences (32:33) Aligned. Score:  35
    Sequences (32:34) Aligned. Score:  42
    Sequences (32:35) Aligned. Score:  36
    Sequences (32:36) Aligned. Score:  51
    Sequences (32:37) Aligned. Score:  59
    Sequences (32:38) Aligned. Score:  58
    Sequences (32:39) Aligned. Score:  56
    Sequences (32:40) Aligned. Score:  42
    Sequences (32:41) Aligned. Score:  34
    Sequences (32:42) Aligned. Score:  39
    Sequences (33:34) Aligned. Score:  36
    Sequences (33:35) Aligned. Score:  30
    Sequences (33:36) Aligned. Score:  29
    Sequences (33:37) Aligned. Score:  30
    Sequences (33:38) Aligned. Score:  30
    Sequences (33:39) Aligned. Score:  32
    Sequences (33:40) Aligned. Score:  35
    Sequences (33:41) Aligned. Score:  32
    Sequences (33:42) Aligned. Score:  35
    Sequences (34:35) Aligned. Score:  54
    Sequences (34:36) Aligned. Score:  46
    Sequences (34:37) Aligned. Score:  47
    Sequences (34:38) Aligned. Score:  50
    Sequences (34:39) Aligned. Score:  48
    Sequences (34:40) Aligned. Score:  92
    Sequences (34:41) Aligned. Score:  63
    Sequences (34:42) Aligned. Score:  56
    Sequences (35:36) Aligned. Score:  42
    Sequences (35:37) Aligned. Score:  41
    Sequences (35:38) Aligned. Score:  40
    Sequences (35:39) Aligned. Score:  41
    Sequences (35:40) Aligned. Score:  56
    Sequences (35:41) Aligned. Score:  53
    Sequences (35:42) Aligned. Score:  51
    Sequences (36:37) Aligned. Score:  69
    Sequences (36:38) Aligned. Score:  70
    Sequences (36:39) Aligned. Score:  70
    Sequences (36:40) Aligned. Score:  46
    Sequences (36:41) Aligned. Score:  38
    Sequences (36:42) Aligned. Score:  36
    Sequences (37:38) Aligned. Score:  84
    Sequences (37:39) Aligned. Score:  83
    Sequences (37:40) Aligned. Score:  47
    Sequences (37:41) Aligned. Score:  40
    Sequences (37:42) Aligned. Score:  39
    Sequences (38:39) Aligned. Score:  93
    Sequences (38:40) Aligned. Score:  50
    Sequences (38:41) Aligned. Score:  41
    Sequences (38:42) Aligned. Score:  40
    Sequences (39:40) Aligned. Score:  48
    Sequences (39:41) Aligned. Score:  40
    Sequences (39:42) Aligned. Score:  41
    Sequences (40:41) Aligned. Score:  60
    Sequences (40:42) Aligned. Score:  54
    Sequences (41:42) Aligned. Score:  51

    Guide tree file created:   [./seqalign-1234567890.1234.dnd]

    Start of Multiple Alignment

    Sequence:39     Score:1453
    Sequence:26     Score:1426
    Sequence:38     Score:1399
    Sequence:15     Score:1411
    Sequence:14     Score:1310
    Sequence:37     Score:1348
    Sequence:28     Score:1320
    Sequence:20     Score:1368
    Sequence:36     Score:1411
    Sequence:5     Score:1309
    Sequence:25     Score:1351
    Sequence:21     Score:1366
    Sequence:30     Score:1390
    Sequence:22     Score:1287
    Sequence:27     Score:1284
    Sequence:32     Score:753
    Sequence:6     Score:725
    Sequence:7     Score:754
    Sequence:12     Score:671
    Sequence:4     Score:667
    Sequence:35     Score:714
    Sequence:13     Score:709
    Sequence:40     Score:720
    Sequence:16     Score:745
    Sequence:34     Score:756
    Sequence:41     Score:689
    Sequence:17     Score:683
    Sequence:18     Score:677
    Sequence:19     Score:689
    Sequence:9     Score:684
    Sequence:31     Score:669
    Sequence:42     Score:683
    Sequence:11     Score:690
    Sequence:8     Score:708
    Sequence:3     Score:668
    Sequence:29     Score:667
    Sequence:23     Score:676
    Sequence:24     Score:615
    Sequence:10     Score:608
    Sequence:33     Score:587
    Alignment Score 209199

    CLUSTAL-Alignment file created  [./seqalign-1234567890.1234.out]

     CLUSTAL 2.1 Multiple Sequence Alignments

    Sequence type explicitly set to Protein
    Sequence format is Pearson
    No. of seqs = 2
    Sequences assumed to be PROTEIN
    Sequence 1: d1cs4a__0    252 aa
    Sequence 2: d1fx2a__1    252 aa
    before profileInput
    Sequence format is Pearson
    No. of seqs in profile=100
    Total no. of seqs     =102
    Sequences assumed to be PROTEIN
    Sequence 3: Q9WVI4_1_149     149 aa
    Sequence 4: Q9ERL9_1_152     152 aa
    Sequence 5: Q9DGG6_1_181     181 aa
    Sequence 6: Q99396_1_212     212 aa
    Sequence 7: Q99280_6_216     211 aa
    Sequence 8: Q99279_1_218     218 aa
    Sequence 9: Q91WF3_1_165     165 aa
    Sequence 10: Q91WF3_1_158     158 aa
    Sequence 11: Q8VHH7_1_186     186 aa
    Sequence 12: Q8NFM4_1_161     161 aa
    Sequence 13: Q8NFM4_1_158     158 aa
    Sequence 14: Q29450_1_186     186 aa
    Sequence 15: Q29450_1_58       58 aa
    Sequence 16: Q27675_1_217     217 aa
    Sequence 17: Q26896_6_216     211 aa
    Sequence 18: Q26721_1_206     206 aa
    Sequence 19: Q25263_1_217     217 aa
    Sequence 20: Q09435_1_161     161 aa
    Sequence 21: Q08828_1_186     186 aa
    Sequence 22: Q08828_1_51       51 aa
    Sequence 23: Q08462_1_186     186 aa
    Sequence 24: Q08462_1_167     167 aa
    Sequence 25: Q07553_1_152     152 aa
    Sequence 26: Q07093_1_158     158 aa
    Sequence 27: Q04400_1_189     189 aa
    Sequence 28: Q04400_1_159     159 aa
    Sequence 29: Q03343_1_189     189 aa
    Sequence 30: Q03343_1_159     159 aa
    Sequence 31: Q03101_1_149     149 aa
    Sequence 32: Q02846_1_152     152 aa
    Sequence 33: Q02153_1_165     165 aa
    Sequence 34: Q02108_1_160     160 aa
    Sequence 35: Q01341_1_188     188 aa
    Sequence 36: Q01341_1_159     159 aa
    Sequence 37: P98999_1_150     150 aa
    Sequence 38: P97490_1_186     186 aa
    Sequence 39: P97490_1_162     162 aa
    Sequence 40: P70106_1_150     150 aa
    Sequence 41: P55205_1_154     154 aa
    Sequence 42: P55204_1_150     150 aa
    Sequence 43: P55203_1_151     151 aa
    Sequence 44: P55202_1_154     154 aa
    Sequence 45: P52785_1_150     150 aa
    Sequence 46: P51842_1_152     152 aa
    Sequence 47: P51841_1_152     152 aa
    Sequence 48: P51840_1_150     150 aa
    Sequence 49: P51839_1_163     163 aa
    Sequence 50: P51830_1_179     179 aa
    Sequence 51: P51829_109_166    58 aa
    Sequence 52: P51829_1_186     186 aa
    Sequence 53: P51828_1_186     186 aa
    Sequence 54: P51828_1_58       58 aa
    Sequence 55: P46197_1_168     168 aa
    Sequence 56: P40146_1_186     186 aa
    Sequence 57: P40146_1_162     162 aa
    Sequence 58: P40145_1_186     186 aa
    Sequence 59: P40145_1_162     162 aa
    Sequence 60: P40144_1_189     189 aa
    Sequence 61: P40144_1_159     159 aa
    Sequence 62: P40137_1_139     139 aa
    Sequence 63: P33402_1_149     149 aa
    Sequence 64: P32870_1_186     186 aa
    Sequence 65: P32870_1_58       58 aa
    Sequence 66: P30804_1_188     188 aa
    Sequence 67: P30804_1_159     159 aa
    Sequence 68: P30803_1_189     189 aa
    Sequence 69: P30803_1_159     159 aa
    Sequence 70: P26770_1_165     165 aa
    Sequence 71: P26770_1_158     158 aa
    Sequence 72: P26769_1_186     186 aa
    Sequence 73: P26769_1_163     163 aa
    Sequence 74: P26338_1_216     216 aa
    Sequence 75: P25092_1_150     150 aa
    Sequence 76: P23897_1_150     150 aa
    Sequence 77: P23466_1_154     154 aa
    Sequence 78: P22717_1_147     147 aa
    Sequence 79: P21932_1_186     186 aa
    Sequence 80: P20595_1_165     165 aa
    Sequence 81: P20594_1_168     168 aa
    Sequence 82: P19754_1_186     186 aa
    Sequence 83: P19754_1_51       51 aa
    Sequence 84: P19687_1_161     161 aa
    Sequence 85: P19686_1_160     160 aa
    Sequence 86: P18910_1_168     168 aa
    Sequence 87: P18293_1_168     168 aa
    Sequence 88: P16068_1_165     165 aa
    Sequence 89: P16067_1_168     168 aa
    Sequence 90: P16066_1_168     168 aa
    Sequence 91: P16065_1_143     143 aa
    Sequence 92: O95622_1_189     189 aa
    Sequence 93: O95622_1_159     159 aa
    Sequence 94: O75343_1_147     147 aa
    Sequence 95: O60503_1_179     179 aa
    Sequence 96: O60266_1_186     186 aa
    Sequence 97: O60266_1_54       54 aa
    Sequence 98: O43306_1_189     189 aa
    Sequence 99: O43306_1_159     159 aa
    Sequence 100: O30820_1_149     149 aa
    Sequence 101: O19179_1_150     150 aa
    Sequence 102: O02740_1_162     162 aa
    after profileInput
    Start of Pairwise alignments
    Aligning...

    Sequences (1:3) Aligned. Score:  36
    Sequences (1:4) Aligned. Score:  32
    Sequences (1:5) Aligned. Score:  46
    Sequences (1:6) Aligned. Score:  15
    Sequences (1:7) Aligned. Score:  15
    Sequences (1:8) Aligned. Score:  16
    Sequences (1:9) Aligned. Score:  29
    Sequences (1:10) Aligned. Score:  63
    Sequences (1:11) Aligned. Score:  61
    Sequences (1:12) Aligned. Score:  30
    Sequences (1:13) Aligned. Score:  63
    Sequences (1:14) Aligned. Score:  62
    Sequences (1:15) Aligned. Score:  43
    Sequences (1:16) Aligned. Score:  14
    Sequences (1:17) Aligned. Score:  15
    Sequences (1:18) Aligned. Score:  15
    Sequences (1:19) Aligned. Score:  14
    Sequences (1:20) Aligned. Score:  29
    Sequences (1:21) Aligned. Score:  74
    Sequences (1:22) Aligned. Score:  43
    Sequences (1:23) Aligned. Score:  58
    Sequences (1:24) Aligned. Score:  27
    Sequences (1:25) Aligned. Score:  32
    Sequences (1:26) Aligned. Score:  30
    Sequences (1:27) Aligned. Score:  96
    Sequences (1:28) Aligned. Score:  29
    Sequences (1:29) Aligned. Score:  93
    Sequences (1:30) Aligned. Score:  29
    Sequences (1:31) Aligned. Score:  29
    Sequences (1:32) Aligned. Score:  31
    Sequences (1:33) Aligned. Score:  33
    Sequences (1:34) Aligned. Score:  31
    Sequences (1:35) Aligned. Score:  93
    Sequences (1:36) Aligned. Score:  29
    Sequences (1:37) Aligned. Score:  56
    Sequences (1:38) Aligned. Score:  68
    Sequences (1:39) Aligned. Score:  30
    Sequences (1:40) Aligned. Score:  27
    Sequences (1:41) Aligned. Score:  26
    Sequences (1:42) Aligned. Score:  27
    Sequences (1:43) Aligned. Score:  31
    Sequences (1:44) Aligned. Score:  27
    Sequences (1:45) Aligned. Score:  32
    Sequences (1:46) Aligned. Score:  30
    Sequences (1:47) Aligned. Score:  31
    Sequences (1:48) Aligned. Score:  32
    Sequences (1:49) Aligned. Score:  26
    Sequences (1:50) Aligned. Score:  47
    Sequences (1:51) Aligned. Score:  43
    Sequences (1:52) Aligned. Score:  61
    Sequences (1:53) Aligned. Score:  62
    Sequences (1:54) Aligned. Score:  43
    Sequences (1:55) Aligned. Score:  30
    Sequences (1:56) Aligned. Score:  68
    Sequences (1:57) Aligned. Score:  30
    Sequences (1:58) Aligned. Score:  68
    Sequences (1:59) Aligned. Score:  30
    Sequences (1:60) Aligned. Score:  96
    Sequences (1:61) Aligned. Score:  29
    Sequences (1:62) Aligned. Score:  25
    Sequences (1:63) Aligned. Score:  34
    Sequences (1:64) Aligned. Score:  72
    Sequences (1:65) Aligned. Score:  39
    Sequences (1:66) Aligned. Score:  93
    Sequences (1:67) Aligned. Score:  27
    Sequences (1:68) Aligned. Score:  97
    Sequences (1:69) Aligned. Score:  29
    Sequences (1:70) Aligned. Score:  30
    Sequences (1:71) Aligned. Score:  63
    Sequences (1:72) Aligned. Score:  59
    Sequences (1:73) Aligned. Score:  28
    Sequences (1:74) Aligned. Score:  15
    Sequences (1:75) Aligned. Score:  26
    Sequences (1:76) Aligned. Score:  27
    Sequences (1:77) Aligned. Score:  4
    Sequences (1:78) Aligned. Score:  25
    Sequences (1:79) Aligned. Score:  61
    Sequences (1:80) Aligned. Score:  33
    Sequences (1:81) Aligned. Score:  30
    Sequences (1:82) Aligned. Score:  74
    Sequences (1:83) Aligned. Score:  43
    Sequences (1:84) Aligned. Score:  31
    Sequences (1:85) Aligned. Score:  31
    Sequences (1:86) Aligned. Score:  31
    Sequences (1:87) Aligned. Score:  32
    Sequences (1:88) Aligned. Score:  33
    Sequences (1:89) Aligned. Score:  30
    Sequences (1:90) Aligned. Score:  29
    Sequences (1:91) Aligned. Score:  32
    Sequences (1:92) Aligned. Score:  96
    Sequences (1:93) Aligned. Score:  29
    Sequences (1:94) Aligned. Score:  25
    Sequences (1:95) Aligned. Score:  48
    Sequences (1:96) Aligned. Score:  61
    Sequences (1:97) Aligned. Score:  38
    Sequences (1:98) Aligned. Score:  93
    Sequences (1:99) Aligned. Score:  29
    Sequences (1:100) Aligned. Score:  35
    Sequences (1:101) Aligned. Score:  32
    Sequences (1:102) Aligned. Score:  32
    Sequences (2:3) Aligned. Score:  22
    Sequences (2:4) Aligned. Score:  17
    Sequences (2:5) Aligned. Score:  11
    Sequences (2:6) Aligned. Score:  73
    Sequences (2:7) Aligned. Score:  85
    Sequences (2:8) Aligned. Score:  92
    Sequences (2:9) Aligned. Score:  17
    Sequences (2:10) Aligned. Score:  16
    Sequences (2:11) Aligned. Score:  14
    Sequences (2:12) Aligned. Score:  18
    Sequences (2:13) Aligned. Score:  15
    Sequences (2:14) Aligned. Score:  16
    Sequences (2:15) Aligned. Score:  34
    Sequences (2:16) Aligned. Score:  58
    Sequences (2:17) Aligned. Score:  69
    Sequences (2:18) Aligned. Score:  81
    Sequences (2:19) Aligned. Score:  58
    Sequences (2:20) Aligned. Score:  18
    Sequences (2:21) Aligned. Score:  15
    Sequences (2:22) Aligned. Score:  31
    Sequences (2:23) Aligned. Score:  9
    Sequences (2:24) Aligned. Score:  14
    Sequences (2:25) Aligned. Score:  22
    Sequences (2:26) Aligned. Score:  17
    Sequences (2:27) Aligned. Score:  14
    Sequences (2:28) Aligned. Score:  13
    Sequences (2:29) Aligned. Score:  12
    Sequences (2:30) Aligned. Score:  12
    Sequences (2:31) Aligned. Score:  23
    Sequences (2:32) Aligned. Score:  23
    Sequences (2:33) Aligned. Score:  15
    Sequences (2:34) Aligned. Score:  16
    Sequences (2:35) Aligned. Score:  10
    Sequences (2:36) Aligned. Score:  12
    Sequences (2:37) Aligned. Score:  13
    Sequences (2:38) Aligned. Score:  13
    Sequences (2:39) Aligned. Score:  12
    Sequences (2:40) Aligned. Score:  20
    Sequences (2:41) Aligned. Score:  22
    Sequences (2:42) Aligned. Score:  20
    Sequences (2:43) Aligned. Score:  18
    Sequences (2:44) Aligned. Score:  20
    Sequences (2:45) Aligned. Score:  24
    Sequences (2:46) Aligned. Score:  24
    Sequences (2:47) Aligned. Score:  23
    Sequences (2:48) Aligned. Score:  24
    Sequences (2:49) Aligned. Score:  23
    Sequences (2:50) Aligned. Score:  11
    Sequences (2:51) Aligned. Score:  34
    Sequences (2:52) Aligned. Score:  16
    Sequences (2:53) Aligned. Score:  15
    Sequences (2:54) Aligned. Score:  34
    Sequences (2:55) Aligned. Score:  22
    Sequences (2:56) Aligned. Score:  14
    Sequences (2:57) Aligned. Score:  12
    Sequences (2:58) Aligned. Score:  13
    Sequences (2:59) Aligned. Score:  12
    Sequences (2:60) Aligned. Score:  12
    Sequences (2:61) Aligned. Score:  13
    Sequences (2:62) Aligned. Score:  23
    Sequences (2:63) Aligned. Score:  22
    Sequences (2:64) Aligned. Score:  17
    Sequences (2:65) Aligned. Score:  31
    Sequences (2:66) Aligned. Score:  10
    Sequences (2:67) Aligned. Score:  12
    Sequences (2:68) Aligned. Score:  12
    Sequences (2:69) Aligned. Score:  13
    Sequences (2:70) Aligned. Score:  17
    Sequences (2:71) Aligned. Score:  16
    Sequences (2:72) Aligned. Score:  9
    Sequences (2:73) Aligned. Score:  14
    Sequences (2:74) Aligned. Score:  80
    Sequences (2:75) Aligned. Score:  20
    Sequences (2:76) Aligned. Score:  20
    Sequences (2:77) Aligned. Score:  36
    Sequences (2:78) Aligned. Score:  23
    Sequences (2:79) Aligned. Score:  14
    Sequences (2:80) Aligned. Score:  15
    Sequences (2:81) Aligned. Score:  22
    Sequences (2:82) Aligned. Score:  15
    Sequences (2:83) Aligned. Score:  31
    Sequences (2:84) Aligned. Score:  16
    Sequences (2:85) Aligned. Score:  16
    Sequences (2:86) Aligned. Score:  23
    Sequences (2:87) Aligned. Score:  23
    Sequences (2:88) Aligned. Score:  15
    Sequences (2:89) Aligned. Score:  22
    Sequences (2:90) Aligned. Score:  23
    Sequences (2:91) Aligned. Score:  25
    Sequences (2:92) Aligned. Score:  12
    Sequences (2:93) Aligned. Score:  13
    Sequences (2:94) Aligned. Score:  23
    Sequences (2:95) Aligned. Score:  11
    Sequences (2:96) Aligned. Score:  14
    Sequences (2:97) Aligned. Score:  18
    Sequences (2:98) Aligned. Score:  12
    Sequences (2:99) Aligned. Score:  12
    Sequences (2:100) Aligned. Score:  20
    Sequences (2:101) Aligned. Score:  24
    Sequences (2:102) Aligned. Score:  23
    Sequences (3:4) Aligned. Score:  79
    Sequences (3:5) Aligned. Score:  32
    Sequences (3:6) Aligned. Score:  24
    Sequences (3:7) Aligned. Score:  22
    Sequences (3:8) Aligned. Score:  23
    Sequences (3:9) Aligned. Score:  27
    Sequences (3:10) Aligned. Score:  36
    Sequences (3:11) Aligned. Score:  35
    Sequences (3:12) Aligned. Score:  26
    Sequences (3:13) Aligned. Score:  36
    Sequences (3:14) Aligned. Score:  36
    Sequences (3:15) Aligned. Score:  37
    Sequences (3:16) Aligned. Score:  20
    Sequences (3:17) Aligned. Score:  23
    Sequences (3:18) Aligned. Score:  22
    Sequences (3:19) Aligned. Score:  20
    Sequences (3:20) Aligned. Score:  44
    Sequences (3:21) Aligned. Score:  36
    Sequences (3:22) Aligned. Score:  39
    Sequences (3:23) Aligned. Score:  38
    Sequences (3:24) Aligned. Score:  27
    Sequences (3:25) Aligned. Score:  52
    Sequences (3:26) Aligned. Score:  61
    Sequences (3:27) Aligned. Score:  37
    Sequences (3:28) Aligned. Score:  33
    Sequences (3:29) Aligned. Score:  38
    Sequences (3:30) Aligned. Score:  32
    Sequences (3:31) Aligned. Score:  32
    Sequences (3:32) Aligned. Score:  50
    Sequences (3:33) Aligned. Score:  48
    Sequences (3:34) Aligned. Score:  78
    Sequences (3:35) Aligned. Score:  38
    Sequences (3:36) Aligned. Score:  32
    Sequences (3:37) Aligned. Score:  32
    Sequences (3:38) Aligned. Score:  36
    Sequences (3:39) Aligned. Score:  35
    Sequences (3:40) Aligned. Score:  51
    Sequences (3:41) Aligned. Score:  50
    Sequences (3:42) Aligned. Score:  55
    Sequences (3:43) Aligned. Score:  51
    Sequences (3:44) Aligned. Score:  48
    Sequences (3:45) Aligned. Score:  50
    Sequences (3:46) Aligned. Score:  49
    Sequences (3:47) Aligned. Score:  50
    Sequences (3:48) Aligned. Score:  50
    Sequences (3:49) Aligned. Score:  52
    Sequences (3:50) Aligned. Score:  32
    Sequences (3:51) Aligned. Score:  37
    Sequences (3:52) Aligned. Score:  35
    Sequences (3:53) Aligned. Score:  35
    Sequences (3:54) Aligned. Score:  37
    Sequences (3:55) Aligned. Score:  51
    Sequences (3:56) Aligned. Score:  36
    Sequences (3:57) Aligned. Score:  35
    Sequences (3:58) Aligned. Score:  36
    Sequences (3:59) Aligned. Score:  35
    Sequences (3:60) Aligned. Score:  37
    Sequences (3:61) Aligned. Score:  33
    Sequences (3:62) Aligned. Score:  30
    Sequences (3:63) Aligned. Score:  98
    Sequences (3:64) Aligned. Score:  36
    Sequences (3:65) Aligned. Score:  34
    Sequences (3:66) Aligned. Score:  34
    Sequences (3:67) Aligned. Score:  32
    Sequences (3:68) Aligned. Score:  37
    Sequences (3:69) Aligned. Score:  33
    Sequences (3:70) Aligned. Score:  28
    Sequences (3:71) Aligned. Score:  36
    Sequences (3:72) Aligned. Score:  38
    Sequences (3:73) Aligned. Score:  26
    Sequences (3:74) Aligned. Score:  24
    Sequences (3:75) Aligned. Score:  54
    Sequences (3:76) Aligned. Score:  52
    Sequences (3:77) Aligned. Score:  14
    Sequences (3:78) Aligned. Score:  51
    Sequences (3:79) Aligned. Score:  35
    Sequences (3:80) Aligned. Score:  48
    Sequences (3:81) Aligned. Score:  51
    Sequences (3:82) Aligned. Score:  36
    Sequences (3:83) Aligned. Score:  39
    Sequences (3:84) Aligned. Score:  78
    Sequences (3:85) Aligned. Score:  79
    Sequences (3:86) Aligned. Score:  51
    Sequences (3:87) Aligned. Score:  51
    Sequences (3:88) Aligned. Score:  48
    Sequences (3:89) Aligned. Score:  51
    Sequences (3:90) Aligned. Score:  51
    Sequences (3:91) Aligned. Score:  51
    Sequences (3:92) Aligned. Score:  37
    Sequences (3:93) Aligned. Score:  33
    Sequences (3:94) Aligned. Score:  49
    Sequences (3:95) Aligned. Score:  32
    Sequences (3:96) Aligned. Score:  35
    Sequences (3:97) Aligned. Score:  40
    Sequences (3:98) Aligned. Score:  38
    Sequences (3:99) Aligned. Score:  32
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    Sequences (4:26) Aligned. Score:  61
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    Sequences (4:32) Aligned. Score:  49
    Sequences (4:33) Aligned. Score:  46
    Sequences (4:34) Aligned. Score:  98
    Sequences (4:35) Aligned. Score:  30
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    Sequences (4:37) Aligned. Score:  34
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    Sequences (4:63) Aligned. Score:  79
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    Sequences (4:82) Aligned. Score:  34
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    Sequences (4:84) Aligned. Score:  97
    Sequences (4:85) Aligned. Score:  100
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    Sequences (4:101) Aligned. Score:  51
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    Sequences (5:13) Aligned. Score:  47
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    Sequences (5:21) Aligned. Score:  49
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    Sequences (5:37) Aligned. Score:  96
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    Sequences (5:50) Aligned. Score:  97
    Sequences (5:51) Aligned. Score:  37
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    Sequences (5:95) Aligned. Score:  97
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    Sequences (7:8) Aligned. Score:  89
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    Sequences (9:12) Aligned. Score:  98
    Sequences (9:13) Aligned. Score:  29
    Sequences (9:14) Aligned. Score:  27
    Sequences (9:15) Aligned. Score:  86
    Sequences (9:16) Aligned. Score:  20
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    Sequences (9:18) Aligned. Score:  19
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    Sequences (9:20) Aligned. Score:  31
    Sequences (9:21) Aligned. Score:  29
    Sequences (9:22) Aligned. Score:  82
    Sequences (9:23) Aligned. Score:  26
    Sequences (9:24) Aligned. Score:  79
    Sequences (9:25) Aligned. Score:  35
    Sequences (9:26) Aligned. Score:  27
    Sequences (9:27) Aligned. Score:  29
    Sequences (9:28) Aligned. Score:  61
    Sequences (9:29) Aligned. Score:  29
    Sequences (9:30) Aligned. Score:  61
    Sequences (9:31) Aligned. Score:  34
    Sequences (9:32) Aligned. Score:  33
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    Sequences (9:34) Aligned. Score:  29
    Sequences (9:35) Aligned. Score:  26
    Sequences (9:36) Aligned. Score:  61
    Sequences (9:37) Aligned. Score:  31
    Sequences (9:38) Aligned. Score:  27
    Sequences (9:39) Aligned. Score:  61
    Sequences (9:40) Aligned. Score:  29
    Sequences (9:41) Aligned. Score:  36
    Sequences (9:42) Aligned. Score:  32
    Sequences (9:43) Aligned. Score:  33
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    Sequences (9:45) Aligned. Score:  34
    Sequences (9:46) Aligned. Score:  33
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    Sequences (9:49) Aligned. Score:  31
    Sequences (9:50) Aligned. Score:  27
    Sequences (9:51) Aligned. Score:  86
    Sequences (9:52) Aligned. Score:  27
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    Sequences (9:54) Aligned. Score:  86
    Sequences (9:55) Aligned. Score:  32
    Sequences (9:56) Aligned. Score:  27
    Sequences (9:57) Aligned. Score:  61
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    Sequences (9:59) Aligned. Score:  61
    Sequences (9:60) Aligned. Score:  29
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    Sequences (9:62) Aligned. Score:  20
    Sequences (9:63) Aligned. Score:  28
    Sequences (9:64) Aligned. Score:  29
    Sequences (9:65) Aligned. Score:  77
    Sequences (9:66) Aligned. Score:  26
    Sequences (9:67) Aligned. Score:  61
    Sequences (9:68) Aligned. Score:  29
    Sequences (9:69) Aligned. Score:  60
    Sequences (9:70) Aligned. Score:  98
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    Sequences (9:73) Aligned. Score:  79
    Sequences (9:74) Aligned. Score:  18
    Sequences (9:75) Aligned. Score:  31
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    Sequences (9:77) Aligned. Score:  14
    Sequences (9:78) Aligned. Score:  35
    Sequences (9:79) Aligned. Score:  27
    Sequences (9:80) Aligned. Score:  32
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    Sequences (9:82) Aligned. Score:  29
    Sequences (9:83) Aligned. Score:  82
    Sequences (9:84) Aligned. Score:  29
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    Sequences (9:86) Aligned. Score:  32
    Sequences (9:87) Aligned. Score:  31
    Sequences (9:88) Aligned. Score:  32
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    Sequences (9:90) Aligned. Score:  31
    Sequences (9:91) Aligned. Score:  36
    Sequences (9:92) Aligned. Score:  29
    Sequences (9:93) Aligned. Score:  61
    Sequences (9:94) Aligned. Score:  36
    Sequences (9:95) Aligned. Score:  27
    Sequences (9:96) Aligned. Score:  27
    Sequences (9:97) Aligned. Score:  79
    Sequences (9:98) Aligned. Score:  29
    Sequences (9:99) Aligned. Score:  61
    Sequences (9:100) Aligned. Score:  36
    Sequences (9:101) Aligned. Score:  35
    Sequences (9:102) Aligned. Score:  31
    Sequences (10:11) Aligned. Score:  57
    Sequences (10:12) Aligned. Score:  29
    Sequences (10:13) Aligned. Score:  99
    Sequences (10:14) Aligned. Score:  82
    Sequences (10:15) Aligned. Score:  39
    Sequences (10:16) Aligned. Score:  13
    Sequences (10:17) Aligned. Score:  10
    Sequences (10:18) Aligned. Score:  4
    Sequences (10:19) Aligned. Score:  13
    Sequences (10:20) Aligned. Score:  32
    Sequences (10:21) Aligned. Score:  67
    Sequences (10:22) Aligned. Score:  43
    Sequences (10:23) Aligned. Score:  86
    Sequences (10:24) Aligned. Score:  27
    Sequences (10:25) Aligned. Score:  34
    Sequences (10:26) Aligned. Score:  31
    Sequences (10:27) Aligned. Score:  65
    Sequences (10:28) Aligned. Score:  29
    Sequences (10:29) Aligned. Score:  65
    Sequences (10:30) Aligned. Score:  28
    Sequences (10:31) Aligned. Score:  29
    Sequences (10:32) Aligned. Score:  34
    Sequences (10:33) Aligned. Score:  29
    Sequences (10:34) Aligned. Score:  35
    Sequences (10:35) Aligned. Score:  64
    Sequences (10:36) Aligned. Score:  28
    Sequences (10:37) Aligned. Score:  50
    Sequences (10:38) Aligned. Score:  60
    Sequences (10:39) Aligned. Score:  31
    Sequences (10:40) Aligned. Score:  37
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    Sequences (10:42) Aligned. Score:  35
    Sequences (10:43) Aligned. Score:  34
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    Sequences (10:45) Aligned. Score:  34
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    Sequences (10:50) Aligned. Score:  47
    Sequences (10:51) Aligned. Score:  39
    Sequences (10:52) Aligned. Score:  82
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    Sequences (10:54) Aligned. Score:  39
    Sequences (10:55) Aligned. Score:  32
    Sequences (10:56) Aligned. Score:  60
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    Sequences (10:60) Aligned. Score:  65
    Sequences (10:61) Aligned. Score:  29
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    Sequences (10:63) Aligned. Score:  35
    Sequences (10:64) Aligned. Score:  65
    Sequences (10:65) Aligned. Score:  39
    Sequences (10:66) Aligned. Score:  63
    Sequences (10:67) Aligned. Score:  28
    Sequences (10:68) Aligned. Score:  65
    Sequences (10:69) Aligned. Score:  29
    Sequences (10:70) Aligned. Score:  30
    Sequences (10:71) Aligned. Score:  100
    Sequences (10:72) Aligned. Score:  86
    Sequences (10:73) Aligned. Score:  27
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    Sequences (10:75) Aligned. Score:  35
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    Sequences (10:77) Aligned. Score:  4
    Sequences (10:78) Aligned. Score:  31
    Sequences (10:79) Aligned. Score:  57
    Sequences (10:80) Aligned. Score:  29
    Sequences (10:81) Aligned. Score:  32
    Sequences (10:82) Aligned. Score:  67
    Sequences (10:83) Aligned. Score:  43
    Sequences (10:84) Aligned. Score:  35
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    Sequences (10:86) Aligned. Score:  32
    Sequences (10:87) Aligned. Score:  32
    Sequences (10:88) Aligned. Score:  29
    Sequences (10:89) Aligned. Score:  32
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    Sequences (10:92) Aligned. Score:  65
    Sequences (10:93) Aligned. Score:  29
    Sequences (10:94) Aligned. Score:  31
    Sequences (10:95) Aligned. Score:  48
    Sequences (10:96) Aligned. Score:  57
    Sequences (10:97) Aligned. Score:  38
    Sequences (10:98) Aligned. Score:  65
    Sequences (10:99) Aligned. Score:  28
    Sequences (10:100) Aligned. Score:  36
    Sequences (10:101) Aligned. Score:  34
    Sequences (10:102) Aligned. Score:  33
    Sequences (11:12) Aligned. Score:  27
    Sequences (11:13) Aligned. Score:  57
    Sequences (11:14) Aligned. Score:  55
    Sequences (11:15) Aligned. Score:  36
    Sequences (11:16) Aligned. Score:  16
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    Sequences (11:21) Aligned. Score:  59
    Sequences (11:22) Aligned. Score:  39
    Sequences (11:23) Aligned. Score:  56
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    Sequences (11:25) Aligned. Score:  33
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    Sequences (11:27) Aligned. Score:  63
    Sequences (11:28) Aligned. Score:  28
    Sequences (11:29) Aligned. Score:  63
    Sequences (11:30) Aligned. Score:  27
    Sequences (11:31) Aligned. Score:  32
    Sequences (11:32) Aligned. Score:  30
    Sequences (11:33) Aligned. Score:  31
    Sequences (11:34) Aligned. Score:  34
    Sequences (11:35) Aligned. Score:  62
    Sequences (11:36) Aligned. Score:  27
    Sequences (11:37) Aligned. Score:  56
    Sequences (11:38) Aligned. Score:  61
    Sequences (11:39) Aligned. Score:  28
    Sequences (11:40) Aligned. Score:  32
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    Sequences (11:50) Aligned. Score:  47
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    Sequences (11:56) Aligned. Score:  61
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    Sequences (11:60) Aligned. Score:  63
    Sequences (11:61) Aligned. Score:  28
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    Sequences (11:63) Aligned. Score:  34
    Sequences (11:64) Aligned. Score:  62
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    Sequences (11:67) Aligned. Score:  28
    Sequences (11:68) Aligned. Score:  63
    Sequences (11:69) Aligned. Score:  27
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    Sequences (11:75) Aligned. Score:  32
    Sequences (11:76) Aligned. Score:  30
    Sequences (11:77) Aligned. Score:  9
    Sequences (11:78) Aligned. Score:  34
    Sequences (11:79) Aligned. Score:  100
    Sequences (11:80) Aligned. Score:  31
    Sequences (11:81) Aligned. Score:  29
    Sequences (11:82) Aligned. Score:  59
    Sequences (11:83) Aligned. Score:  39
    Sequences (11:84) Aligned. Score:  34
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    Sequences (11:86) Aligned. Score:  27
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    Sequences (11:88) Aligned. Score:  31
    Sequences (11:89) Aligned. Score:  29
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    Sequences (11:91) Aligned. Score:  33
    Sequences (11:92) Aligned. Score:  63
    Sequences (11:93) Aligned. Score:  28
    Sequences (11:94) Aligned. Score:  32
    Sequences (11:95) Aligned. Score:  47
    Sequences (11:96) Aligned. Score:  99
    Sequences (11:97) Aligned. Score:  35
    Sequences (11:98) Aligned. Score:  63
    Sequences (11:99) Aligned. Score:  27
    Sequences (11:100) Aligned. Score:  34
    Sequences (11:101) Aligned. Score:  30
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    Sequences (12:13) Aligned. Score:  29
    Sequences (12:14) Aligned. Score:  27
    Sequences (12:15) Aligned. Score:  84
    Sequences (12:16) Aligned. Score:  19
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    Sequences (12:20) Aligned. Score:  31
    Sequences (12:21) Aligned. Score:  29
    Sequences (12:22) Aligned. Score:  82
    Sequences (12:23) Aligned. Score:  26
    Sequences (12:24) Aligned. Score:  81
    Sequences (12:25) Aligned. Score:  33
    Sequences (12:26) Aligned. Score:  27
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    Sequences (12:28) Aligned. Score:  61
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    Sequences (12:30) Aligned. Score:  60
    Sequences (12:31) Aligned. Score:  34
    Sequences (12:32) Aligned. Score:  31
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    Sequences (12:34) Aligned. Score:  28
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    Sequences (12:36) Aligned. Score:  60
    Sequences (12:37) Aligned. Score:  30
    Sequences (12:38) Aligned. Score:  27
    Sequences (12:39) Aligned. Score:  61
    Sequences (12:40) Aligned. Score:  28
    Sequences (12:41) Aligned. Score:  33
    Sequences (12:42) Aligned. Score:  30
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    Sequences (12:51) Aligned. Score:  84
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    Sequences (12:54) Aligned. Score:  84
    Sequences (12:55) Aligned. Score:  32
    Sequences (12:56) Aligned. Score:  27
    Sequences (12:57) Aligned. Score:  61
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    Sequences (12:60) Aligned. Score:  29
    Sequences (12:61) Aligned. Score:  60
    Sequences (12:62) Aligned. Score:  23
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    Sequences (12:65) Aligned. Score:  75
    Sequences (12:66) Aligned. Score:  26
    Sequences (12:67) Aligned. Score:  61
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    Sequences (12:70) Aligned. Score:  97
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    Sequences (12:73) Aligned. Score:  81
    Sequences (12:74) Aligned. Score:  19
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    Sequences (12:78) Aligned. Score:  34
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    Sequences (12:83) Aligned. Score:  82
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    Sequences (12:86) Aligned. Score:  32
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    Sequences (12:93) Aligned. Score:  60
    Sequences (12:94) Aligned. Score:  35
    Sequences (12:95) Aligned. Score:  27
    Sequences (12:96) Aligned. Score:  27
    Sequences (12:97) Aligned. Score:  79
    Sequences (12:98) Aligned. Score:  29
    Sequences (12:99) Aligned. Score:  60
    Sequences (12:100) Aligned. Score:  34
    Sequences (12:101) Aligned. Score:  33
    Sequences (12:102) Aligned. Score:  30
    Sequences (13:14) Aligned. Score:  82
    Sequences (13:15) Aligned. Score:  39
    Sequences (13:16) Aligned. Score:  9
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    Sequences (13:18) Aligned. Score:  15
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    Sequences (13:20) Aligned. Score:  31
    Sequences (13:21) Aligned. Score:  67
    Sequences (13:22) Aligned. Score:  43
    Sequences (13:23) Aligned. Score:  86
    Sequences (13:24) Aligned. Score:  27
    Sequences (13:25) Aligned. Score:  34
    Sequences (13:26) Aligned. Score:  31
    Sequences (13:27) Aligned. Score:  65
    Sequences (13:28) Aligned. Score:  29
    Sequences (13:29) Aligned. Score:  65
    Sequences (13:30) Aligned. Score:  28
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    Sequences (13:32) Aligned. Score:  34
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    Sequences (13:35) Aligned. Score:  64
    Sequences (13:36) Aligned. Score:  28
    Sequences (13:37) Aligned. Score:  50
    Sequences (13:38) Aligned. Score:  60
    Sequences (13:39) Aligned. Score:  31
    Sequences (13:40) Aligned. Score:  38
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    Sequences (13:52) Aligned. Score:  82
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    Sequences (13:56) Aligned. Score:  60
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    Sequences (13:60) Aligned. Score:  65
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    Sequences (13:64) Aligned. Score:  65
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    Sequences (13:71) Aligned. Score:  99
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    Sequences (13:82) Aligned. Score:  67
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    Sequences (13:92) Aligned. Score:  65
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    Sequences (14:21) Aligned. Score:  64
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    Sequences (14:23) Aligned. Score:  82
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    Sequences (14:33) Aligned. Score:  33
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    Sequences (14:35) Aligned. Score:  63
    Sequences (14:36) Aligned. Score:  29
    Sequences (14:37) Aligned. Score:  52
    Sequences (14:38) Aligned. Score:  57
    Sequences (14:39) Aligned. Score:  30
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    Sequences (14:42) Aligned. Score:  35
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    Sequences (14:45) Aligned. Score:  35
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    Sequences (14:50) Aligned. Score:  46
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    Sequences (14:52) Aligned. Score:  97
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    Sequences (14:59) Aligned. Score:  30
    Sequences (14:60) Aligned. Score:  63
    Sequences (14:61) Aligned. Score:  29
    Sequences (14:62) Aligned. Score:  30
    Sequences (14:63) Aligned. Score:  34
    Sequences (14:64) Aligned. Score:  62
    Sequences (14:65) Aligned. Score:  44
    Sequences (14:66) Aligned. Score:  63
    Sequences (14:67) Aligned. Score:  29
    Sequences (14:68) Aligned. Score:  63
    Sequences (14:69) Aligned. Score:  30
    Sequences (14:70) Aligned. Score:  28
    Sequences (14:71) Aligned. Score:  82
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    Sequences (14:75) Aligned. Score:  34
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    Sequences (14:77) Aligned. Score:  6
    Sequences (14:78) Aligned. Score:  35
    Sequences (14:79) Aligned. Score:  55
    Sequences (14:80) Aligned. Score:  33
    Sequences (14:81) Aligned. Score:  30
    Sequences (14:82) Aligned. Score:  65
    Sequences (14:83) Aligned. Score:  49
    Sequences (14:84) Aligned. Score:  33
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    Sequences (14:86) Aligned. Score:  30
    Sequences (14:87) Aligned. Score:  31
    Sequences (14:88) Aligned. Score:  33
    Sequences (14:89) Aligned. Score:  30
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    Sequences (14:91) Aligned. Score:  35
    Sequences (14:92) Aligned. Score:  63
    Sequences (14:93) Aligned. Score:  29
    Sequences (14:94) Aligned. Score:  36
    Sequences (14:95) Aligned. Score:  46
    Sequences (14:96) Aligned. Score:  55
    Sequences (14:97) Aligned. Score:  44
    Sequences (14:98) Aligned. Score:  63
    Sequences (14:99) Aligned. Score:  29
    Sequences (14:100) Aligned. Score:  36
    Sequences (14:101) Aligned. Score:  34
    Sequences (14:102) Aligned. Score:  35
    Sequences (15:16) Aligned. Score:  29
    Sequences (15:17) Aligned. Score:  32
    Sequences (15:18) Aligned. Score:  32
    Sequences (15:19) Aligned. Score:  29
    Sequences (15:20) Aligned. Score:  44
    Sequences (15:21) Aligned. Score:  43
    Sequences (15:22) Aligned. Score:  82
    Sequences (15:23) Aligned. Score:  37
    Sequences (15:24) Aligned. Score:  84
    Sequences (15:25) Aligned. Score:  46
    Sequences (15:26) Aligned. Score:  34
    Sequences (15:27) Aligned. Score:  43
    Sequences (15:28) Aligned. Score:  67
    Sequences (15:29) Aligned. Score:  43
    Sequences (15:30) Aligned. Score:  65
    Sequences (15:31) Aligned. Score:  55
    Sequences (15:32) Aligned. Score:  48
    Sequences (15:33) Aligned. Score:  51
    Sequences (15:34) Aligned. Score:  36
    Sequences (15:35) Aligned. Score:  34
    Sequences (15:36) Aligned. Score:  65
    Sequences (15:37) Aligned. Score:  37
    Sequences (15:38) Aligned. Score:  37
    Sequences (15:39) Aligned. Score:  72
    Sequences (15:40) Aligned. Score:  44
    Sequences (15:41) Aligned. Score:  44
    Sequences (15:42) Aligned. Score:  48
    Sequences (15:43) Aligned. Score:  46
    Sequences (15:44) Aligned. Score:  50
    Sequences (15:45) Aligned. Score:  48
    Sequences (15:46) Aligned. Score:  51
    Sequences (15:47) Aligned. Score:  51
    Sequences (15:48) Aligned. Score:  48
    Sequences (15:49) Aligned. Score:  46
    Sequences (15:50) Aligned. Score:  37
    Sequences (15:51) Aligned. Score:  100
    Sequences (15:52) Aligned. Score:  46
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    Sequences (15:54) Aligned. Score:  100
    Sequences (15:55) Aligned. Score:  50
    Sequences (15:56) Aligned. Score:  37
    Sequences (15:57) Aligned. Score:  72
    Sequences (15:58) Aligned. Score:  37
    Sequences (15:59) Aligned. Score:  72
    Sequences (15:60) Aligned. Score:  43
    Sequences (15:61) Aligned. Score:  67
    Sequences (15:62) Aligned. Score:  32
    Sequences (15:63) Aligned. Score:  39
    Sequences (15:64) Aligned. Score:  46
    Sequences (15:65) Aligned. Score:  75
    Sequences (15:66) Aligned. Score:  41
    Sequences (15:67) Aligned. Score:  65
    Sequences (15:68) Aligned. Score:  43
    Sequences (15:69) Aligned. Score:  67
    Sequences (15:70) Aligned. Score:  86
    Sequences (15:71) Aligned. Score:  39
    Sequences (15:72) Aligned. Score:  37
    Sequences (15:73) Aligned. Score:  82
    Sequences (15:74) Aligned. Score:  34
    Sequences (15:75) Aligned. Score:  46
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    Sequences (15:77) Aligned. Score:  20
    Sequences (15:78) Aligned. Score:  44
    Sequences (15:79) Aligned. Score:  36
    Sequences (15:80) Aligned. Score:  51
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    Sequences (15:82) Aligned. Score:  43
    Sequences (15:83) Aligned. Score:  82
    Sequences (15:84) Aligned. Score:  36
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    Sequences (15:86) Aligned. Score:  53
    Sequences (15:87) Aligned. Score:  51
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    Sequences (15:90) Aligned. Score:  53
    Sequences (15:91) Aligned. Score:  41
    Sequences (15:92) Aligned. Score:  43
    Sequences (15:93) Aligned. Score:  67
    Sequences (15:94) Aligned. Score:  44
    Sequences (15:95) Aligned. Score:  37
    Sequences (15:96) Aligned. Score:  36
    Sequences (15:97) Aligned. Score:  77
    Sequences (15:98) Aligned. Score:  43
    Sequences (15:99) Aligned. Score:  65
    Sequences (15:100) Aligned. Score:  56
    Sequences (15:101) Aligned. Score:  48
    Sequences (15:102) Aligned. Score:  51
    Sequences (16:17) Aligned. Score:  63
    Sequences (16:18) Aligned. Score:  66
    Sequences (16:19) Aligned. Score:  99
    Sequences (16:20) Aligned. Score:  18
    Sequences (16:21) Aligned. Score:  19
    Sequences (16:22) Aligned. Score:  17
    Sequences (16:23) Aligned. Score:  6
    Sequences (16:24) Aligned. Score:  16
    Sequences (16:25) Aligned. Score:  24
    Sequences (16:26) Aligned. Score:  15
    Sequences (16:27) Aligned. Score:  14
    Sequences (16:28) Aligned. Score:  13
    Sequences (16:29) Aligned. Score:  17
    Sequences (16:30) Aligned. Score:  13
    Sequences (16:31) Aligned. Score:  21
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    Sequences (16:33) Aligned. Score:  18
    Sequences (16:34) Aligned. Score:  21
    Sequences (16:35) Aligned. Score:  10
    Sequences (16:36) Aligned. Score:  13
    Sequences (16:37) Aligned. Score:  20
    Sequences (16:38) Aligned. Score:  10
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    Sequences (16:40) Aligned. Score:  16
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    Sequences (16:56) Aligned. Score:  10
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    Sequences (16:74) Aligned. Score:  63
    Sequences (16:75) Aligned. Score:  17
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    Sequences (16:78) Aligned. Score:  25
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    Sequences (16:100) Aligned. Score:  19
    Sequences (16:101) Aligned. Score:  24
    Sequences (16:102) Aligned. Score:  20
    Sequences (17:18) Aligned. Score:  75
    Sequences (17:19) Aligned. Score:  63
    Sequences (17:20) Aligned. Score:  22
    Sequences (17:21) Aligned. Score:  15
    Sequences (17:22) Aligned. Score:  21
    Sequences (17:23) Aligned. Score:  10
    Sequences (17:24) Aligned. Score:  15
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    Sequences (17:27) Aligned. Score:  19
    Sequences (17:28) Aligned. Score:  13
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    Sequences (17:31) Aligned. Score:  22
    Sequences (17:32) Aligned. Score:  23
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    Sequences (17:34) Aligned. Score:  21
    Sequences (17:35) Aligned. Score:  10
    Sequences (17:36) Aligned. Score:  13
    Sequences (17:37) Aligned. Score:  11
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    Sequences (17:51) Aligned. Score:  32
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    Sequences (17:92) Aligned. Score:  19
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    Sequences (17:101) Aligned. Score:  24
    Sequences (17:102) Aligned. Score:  12
    Sequences (18:19) Aligned. Score:  65
    Sequences (18:20) Aligned. Score:  16
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    Sequences (18:32) Aligned. Score:  25
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    Sequences (18:35) Aligned. Score:  8
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    Sequences (18:74) Aligned. Score:  92
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    Sequences (20:91) Aligned. Score:  60
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    Sequences (21:23) Aligned. Score:  64
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    Sequences (21:27) Aligned. Score:  76
    Sequences (21:28) Aligned. Score:  30
    Sequences (21:29) Aligned. Score:  74
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    Sequences (21:35) Aligned. Score:  74
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    Sequences (21:82) Aligned. Score:  99
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    Sequences (21:92) Aligned. Score:  75
    Sequences (21:93) Aligned. Score:  30
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    Sequences (21:98) Aligned. Score:  74
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    Sequences (22:24) Aligned. Score:  84
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    Sequences (22:28) Aligned. Score:  80
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    Sequences (22:83) Aligned. Score:  100
    Sequences (22:84) Aligned. Score:  35
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    Sequences (22:86) Aligned. Score:  47
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    Sequences (22:93) Aligned. Score:  80
    Sequences (22:94) Aligned. Score:  45
    Sequences (22:95) Aligned. Score:  37
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    Sequences (22:97) Aligned. Score:  74
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    Sequences (22:99) Aligned. Score:  78
    Sequences (22:100) Aligned. Score:  62
    Sequences (22:101) Aligned. Score:  49
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    Sequences (23:27) Aligned. Score:  63
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    Sequences (24:28) Aligned. Score:  61
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    Sequences (24:36) Aligned. Score:  61
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    Sequences (24:51) Aligned. Score:  84
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    Sequences (25:89) Aligned. Score:  67
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    Sequences (25:91) Aligned. Score:  70
    Sequences (25:92) Aligned. Score:  32
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    Sequences (25:101) Aligned. Score:  64
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    Sequences (26:29) Aligned. Score:  32
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    Sequences (26:31) Aligned. Score:  28
    Sequences (26:32) Aligned. Score:  40
    Sequences (26:33) Aligned. Score:  39
    Sequences (26:34) Aligned. Score:  58
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    Sequences (26:37) Aligned. Score:  32
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    Sequences (26:40) Aligned. Score:  48
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    Sequences (26:42) Aligned. Score:  50
    Sequences (26:43) Aligned. Score:  41
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    Sequences (26:55) Aligned. Score:  51
    Sequences (26:56) Aligned. Score:  32
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    Sequences (26:62) Aligned. Score:  29
    Sequences (26:63) Aligned. Score:  61
    Sequences (26:64) Aligned. Score:  32
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    Sequences (26:68) Aligned. Score:  32
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    Sequences (26:70) Aligned. Score:  27
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    Sequences (26:79) Aligned. Score:  32
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    Sequences (26:81) Aligned. Score:  51
    Sequences (26:82) Aligned. Score:  33
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    Sequences (26:84) Aligned. Score:  58
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    Sequences (26:86) Aligned. Score:  51
    Sequences (26:87) Aligned. Score:  50
    Sequences (26:88) Aligned. Score:  39
    Sequences (26:89) Aligned. Score:  51
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    Sequences (26:91) Aligned. Score:  43
    Sequences (26:92) Aligned. Score:  32
    Sequences (26:93) Aligned. Score:  25
    Sequences (26:94) Aligned. Score:  43
    Sequences (26:95) Aligned. Score:  31
    Sequences (26:96) Aligned. Score:  32
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    Sequences (26:98) Aligned. Score:  32
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    Sequences (26:101) Aligned. Score:  41
    Sequences (26:102) Aligned. Score:  41
    Sequences (27:28) Aligned. Score:  29
    Sequences (27:29) Aligned. Score:  95
    Sequences (27:30) Aligned. Score:  29
    Sequences (27:31) Aligned. Score:  30
    Sequences (27:32) Aligned. Score:  31
    Sequences (27:33) Aligned. Score:  33
    Sequences (27:34) Aligned. Score:  32
    Sequences (27:35) Aligned. Score:  95
    Sequences (27:36) Aligned. Score:  29
    Sequences (27:37) Aligned. Score:  56
    Sequences (27:38) Aligned. Score:  69
    Sequences (27:39) Aligned. Score:  32
    Sequences (27:40) Aligned. Score:  31
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    Sequences (27:42) Aligned. Score:  30
    Sequences (27:43) Aligned. Score:  31
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    Sequences (27:50) Aligned. Score:  49
    Sequences (27:51) Aligned. Score:  43
    Sequences (27:52) Aligned. Score:  63
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    Sequences (27:55) Aligned. Score:  30
    Sequences (27:56) Aligned. Score:  69
    Sequences (27:57) Aligned. Score:  32
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    Sequences (27:59) Aligned. Score:  32
    Sequences (27:60) Aligned. Score:  99
    Sequences (27:61) Aligned. Score:  29
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    Sequences (27:63) Aligned. Score:  36
    Sequences (27:64) Aligned. Score:  74
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    Sequences (27:66) Aligned. Score:  95
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    Sequences (27:68) Aligned. Score:  98
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    Sequences (27:79) Aligned. Score:  63
    Sequences (27:80) Aligned. Score:  33
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    Sequences (27:82) Aligned. Score:  76
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    Sequences (27:89) Aligned. Score:  30
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    Sequences (27:91) Aligned. Score:  34
    Sequences (27:92) Aligned. Score:  99
    Sequences (27:93) Aligned. Score:  29
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    Sequences (27:95) Aligned. Score:  50
    Sequences (27:96) Aligned. Score:  63
    Sequences (27:97) Aligned. Score:  38
    Sequences (27:98) Aligned. Score:  95
    Sequences (27:99) Aligned. Score:  29
    Sequences (27:100) Aligned. Score:  36
    Sequences (27:101) Aligned. Score:  32
    Sequences (27:102) Aligned. Score:  30
    Sequences (28:29) Aligned. Score:  29
    Sequences (28:30) Aligned. Score:  91
    Sequences (28:31) Aligned. Score:  34
    Sequences (28:32) Aligned. Score:  33
    Sequences (28:33) Aligned. Score:  29
    Sequences (28:34) Aligned. Score:  29
    Sequences (28:35) Aligned. Score:  26
    Sequences (28:36) Aligned. Score:  91
    Sequences (28:37) Aligned. Score:  26
    Sequences (28:38) Aligned. Score:  28
    Sequences (28:39) Aligned. Score:  64
    Sequences (28:40) Aligned. Score:  28
    Sequences (28:41) Aligned. Score:  33
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    Sequences (28:51) Aligned. Score:  67
    Sequences (28:52) Aligned. Score:  30
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    Sequences (28:57) Aligned. Score:  64
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    Sequences (28:61) Aligned. Score:  99
    Sequences (28:62) Aligned. Score:  20
    Sequences (28:63) Aligned. Score:  33
    Sequences (28:64) Aligned. Score:  30
    Sequences (28:65) Aligned. Score:  75
    Sequences (28:66) Aligned. Score:  25
    Sequences (28:67) Aligned. Score:  91
    Sequences (28:68) Aligned. Score:  29
    Sequences (28:69) Aligned. Score:  98
    Sequences (28:70) Aligned. Score:  61
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    Sequences (28:73) Aligned. Score:  60
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    Sequences (28:83) Aligned. Score:  80
    Sequences (28:84) Aligned. Score:  29
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    Sequences (28:91) Aligned. Score:  36
    Sequences (28:92) Aligned. Score:  29
    Sequences (28:93) Aligned. Score:  99
    Sequences (28:94) Aligned. Score:  29
    Sequences (28:95) Aligned. Score:  24
    Sequences (28:96) Aligned. Score:  28
    Sequences (28:97) Aligned. Score:  70
    Sequences (28:98) Aligned. Score:  29
    Sequences (28:99) Aligned. Score:  91
    Sequences (28:100) Aligned. Score:  38
    Sequences (28:101) Aligned. Score:  34
    Sequences (28:102) Aligned. Score:  32
    Sequences (29:30) Aligned. Score:  29
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    Sequences (29:32) Aligned. Score:  31
    Sequences (29:33) Aligned. Score:  33
    Sequences (29:34) Aligned. Score:  32
    Sequences (29:35) Aligned. Score:  98
    Sequences (29:36) Aligned. Score:  29
    Sequences (29:37) Aligned. Score:  56
    Sequences (29:38) Aligned. Score:  68
    Sequences (29:39) Aligned. Score:  32
    Sequences (29:40) Aligned. Score:  31
    Sequences (29:41) Aligned. Score:  26
    Sequences (29:42) Aligned. Score:  30
    Sequences (29:43) Aligned. Score:  33
    Sequences (29:44) Aligned. Score:  30
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    Sequences (29:48) Aligned. Score:  32
    Sequences (29:49) Aligned. Score:  28
    Sequences (29:50) Aligned. Score:  51
    Sequences (29:51) Aligned. Score:  43
    Sequences (29:52) Aligned. Score:  63
    Sequences (29:53) Aligned. Score:  63
    Sequences (29:54) Aligned. Score:  43
    Sequences (29:55) Aligned. Score:  29
    Sequences (29:56) Aligned. Score:  68
    Sequences (29:57) Aligned. Score:  32
    Sequences (29:58) Aligned. Score:  68
    Sequences (29:59) Aligned. Score:  32
    Sequences (29:60) Aligned. Score:  95
    Sequences (29:61) Aligned. Score:  29
    Sequences (29:62) Aligned. Score:  27
    Sequences (29:63) Aligned. Score:  36
    Sequences (29:64) Aligned. Score:  74
    Sequences (29:65) Aligned. Score:  39
    Sequences (29:66) Aligned. Score:  98
    Sequences (29:67) Aligned. Score:  29
    Sequences (29:68) Aligned. Score:  95
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    Sequences (29:71) Aligned. Score:  65
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    Sequences (29:79) Aligned. Score:  63
    Sequences (29:80) Aligned. Score:  33
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    Sequences (29:82) Aligned. Score:  74
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    Sequences (29:92) Aligned. Score:  95
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    Sequences (29:95) Aligned. Score:  51
    Sequences (29:96) Aligned. Score:  63
    Sequences (29:97) Aligned. Score:  38
    Sequences (29:98) Aligned. Score:  98
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    Sequences (29:101) Aligned. Score:  32
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    Sequences (30:32) Aligned. Score:  32
    Sequences (30:33) Aligned. Score:  30
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    Sequences (30:36) Aligned. Score:  100
    Sequences (30:37) Aligned. Score:  26
    Sequences (30:38) Aligned. Score:  27
    Sequences (30:39) Aligned. Score:  62
    Sequences (30:40) Aligned. Score:  28
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    Sequences (30:43) Aligned. Score:  33
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    Sequences (30:51) Aligned. Score:  65
    Sequences (30:52) Aligned. Score:  29
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    Sequences (30:54) Aligned. Score:  65
    Sequences (30:55) Aligned. Score:  29
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    Sequences (30:57) Aligned. Score:  62
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    Sequences (30:60) Aligned. Score:  29
    Sequences (30:61) Aligned. Score:  91
    Sequences (30:62) Aligned. Score:  18
    Sequences (30:63) Aligned. Score:  32
    Sequences (30:64) Aligned. Score:  28
    Sequences (30:65) Aligned. Score:  72
    Sequences (30:66) Aligned. Score:  25
    Sequences (30:67) Aligned. Score:  99
    Sequences (30:68) Aligned. Score:  29
    Sequences (30:69) Aligned. Score:  91
    Sequences (30:70) Aligned. Score:  61
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    Sequences (30:73) Aligned. Score:  59
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    Sequences (30:83) Aligned. Score:  78
    Sequences (30:84) Aligned. Score:  27
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    Sequences (30:91) Aligned. Score:  36
    Sequences (30:92) Aligned. Score:  29
    Sequences (30:93) Aligned. Score:  91
    Sequences (30:94) Aligned. Score:  27
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    Sequences (30:96) Aligned. Score:  27
    Sequences (30:97) Aligned. Score:  68
    Sequences (30:98) Aligned. Score:  29
    Sequences (30:99) Aligned. Score:  100
    Sequences (30:100) Aligned. Score:  38
    Sequences (30:101) Aligned. Score:  34
    Sequences (30:102) Aligned. Score:  32
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    Sequences (31:36) Aligned. Score:  34
    Sequences (31:37) Aligned. Score:  32
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    Sequences (32:55) Aligned. Score:  69
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    Sequences (32:101) Aligned. Score:  97
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    Sequences (43:101) Aligned. Score:  96
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    Sequences (45:101) Aligned. Score:  98
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    Sequences (47:101) Aligned. Score:  93
    Sequences (47:102) Aligned. Score:  98
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    Sequences (48:55) Aligned. Score:  70
    Sequences (48:56) Aligned. Score:  34
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    Sequences (48:75) Aligned. Score:  72
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    Sequences (48:79) Aligned. Score:  30
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    Sequences (48:81) Aligned. Score:  70
    Sequences (48:82) Aligned. Score:  34
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    Sequences (48:86) Aligned. Score:  68
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    Sequences (48:89) Aligned. Score:  70
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    Sequences (48:92) Aligned. Score:  32
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    Sequences (48:94) Aligned. Score:  50
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    Sequences (48:99) Aligned. Score:  33
    Sequences (48:100) Aligned. Score:  37
    Sequences (48:101) Aligned. Score:  99
    Sequences (48:102) Aligned. Score:  94
    Sequences (49:50) Aligned. Score:  30
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    Sequences (49:55) Aligned. Score:  64
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    Sequences (49:75) Aligned. Score:  73
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    Sequences (49:81) Aligned. Score:  64
    Sequences (49:82) Aligned. Score:  30
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    Sequences (49:89) Aligned. Score:  64
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    Sequences (49:92) Aligned. Score:  28
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    Sequences (49:95) Aligned. Score:  30
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    Sequences (49:101) Aligned. Score:  84
    Sequences (49:102) Aligned. Score:  79
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    Sequences (50:95) Aligned. Score:  98
    Sequences (50:96) Aligned. Score:  47
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    Sequences (51:54) Aligned. Score:  100
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    Sequences (51:56) Aligned. Score:  37
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    Sequences (51:84) Aligned. Score:  36
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    Sequences (51:93) Aligned. Score:  67
    Sequences (51:94) Aligned. Score:  44
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    Sequences (52:71) Aligned. Score:  82
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    Sequences (54:97) Aligned. Score:  77
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    Sequences (57:69) Aligned. Score:  63
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    Sequences (57:71) Aligned. Score:  31
    Sequences (57:72) Aligned. Score:  29
    Sequences (57:73) Aligned. Score:  61
    Sequences (57:74) Aligned. Score:  10
    Sequences (57:75) Aligned. Score:  34
    Sequences (57:76) Aligned. Score:  32
    Sequences (57:77) Aligned. Score:  8
    Sequences (57:78) Aligned. Score:  31
    Sequences (57:79) Aligned. Score:  28
    Sequences (57:80) Aligned. Score:  34
    Sequences (57:81) Aligned. Score:  33
    Sequences (57:82) Aligned. Score:  31
    Sequences (57:83) Aligned. Score:  76
    Sequences (57:84) Aligned. Score:  31
    Sequences (57:85) Aligned. Score:  31
    Sequences (57:86) Aligned. Score:  34
    Sequences (57:87) Aligned. Score:  35
    Sequences (57:88) Aligned. Score:  34
    Sequences (57:89) Aligned. Score:  33
    Sequences (57:90) Aligned. Score:  35
    Sequences (57:91) Aligned. Score:  35
    Sequences (57:92) Aligned. Score:  32
    Sequences (57:93) Aligned. Score:  64
    Sequences (57:94) Aligned. Score:  30
    Sequences (57:95) Aligned. Score:  26
    Sequences (57:96) Aligned. Score:  28
    Sequences (57:97) Aligned. Score:  74
    Sequences (57:98) Aligned. Score:  32
    Sequences (57:99) Aligned. Score:  62
    Sequences (57:100) Aligned. Score:  40
    Sequences (57:101) Aligned. Score:  36
    Sequences (57:102) Aligned. Score:  35
    Sequences (58:59) Aligned. Score:  30
    Sequences (58:60) Aligned. Score:  69
    Sequences (58:61) Aligned. Score:  28
    Sequences (58:62) Aligned. Score:  27
    Sequences (58:63) Aligned. Score:  35
    Sequences (58:64) Aligned. Score:  68
    Sequences (58:65) Aligned. Score:  36
    Sequences (58:66) Aligned. Score:  67
    Sequences (58:67) Aligned. Score:  27
    Sequences (58:68) Aligned. Score:  69
    Sequences (58:69) Aligned. Score:  28
    Sequences (58:70) Aligned. Score:  26
    Sequences (58:71) Aligned. Score:  60
    Sequences (58:72) Aligned. Score:  58
    Sequences (58:73) Aligned. Score:  26
    Sequences (58:74) Aligned. Score:  16
    Sequences (58:75) Aligned. Score:  30
    Sequences (58:76) Aligned. Score:  31
    Sequences (58:77) Aligned. Score:  5
    Sequences (58:78) Aligned. Score:  33
    Sequences (58:79) Aligned. Score:  62
    Sequences (58:80) Aligned. Score:  32
    Sequences (58:81) Aligned. Score:  30
    Sequences (58:82) Aligned. Score:  67
    Sequences (58:83) Aligned. Score:  39
    Sequences (58:84) Aligned. Score:  33
    Sequences (58:85) Aligned. Score:  31
    Sequences (58:86) Aligned. Score:  30
    Sequences (58:87) Aligned. Score:  30
    Sequences (58:88) Aligned. Score:  32
    Sequences (58:89) Aligned. Score:  30
    Sequences (58:90) Aligned. Score:  30
    Sequences (58:91) Aligned. Score:  34
    Sequences (58:92) Aligned. Score:  69
    Sequences (58:93) Aligned. Score:  28
    Sequences (58:94) Aligned. Score:  32
    Sequences (58:95) Aligned. Score:  50
    Sequences (58:96) Aligned. Score:  62
    Sequences (58:97) Aligned. Score:  38
    Sequences (58:98) Aligned. Score:  68
    Sequences (58:99) Aligned. Score:  27
    Sequences (58:100) Aligned. Score:  34
    Sequences (58:101) Aligned. Score:  34
    Sequences (58:102) Aligned. Score:  31
    Sequences (59:60) Aligned. Score:  32
    Sequences (59:61) Aligned. Score:  64
    Sequences (59:62) Aligned. Score:  22
    Sequences (59:63) Aligned. Score:  35
    Sequences (59:64) Aligned. Score:  30
    Sequences (59:65) Aligned. Score:  68
    Sequences (59:66) Aligned. Score:  28
    Sequences (59:67) Aligned. Score:  62
    Sequences (59:68) Aligned. Score:  32
    Sequences (59:69) Aligned. Score:  63
    Sequences (59:70) Aligned. Score:  61
    Sequences (59:71) Aligned. Score:  31
    Sequences (59:72) Aligned. Score:  29
    Sequences (59:73) Aligned. Score:  61
    Sequences (59:74) Aligned. Score:  10
    Sequences (59:75) Aligned. Score:  34
    Sequences (59:76) Aligned. Score:  32
    Sequences (59:77) Aligned. Score:  8
    Sequences (59:78) Aligned. Score:  31
    Sequences (59:79) Aligned. Score:  28
    Sequences (59:80) Aligned. Score:  34
    Sequences (59:81) Aligned. Score:  33
    Sequences (59:82) Aligned. Score:  31
    Sequences (59:83) Aligned. Score:  76
    Sequences (59:84) Aligned. Score:  31
    Sequences (59:85) Aligned. Score:  31
    Sequences (59:86) Aligned. Score:  34
    Sequences (59:87) Aligned. Score:  35
    Sequences (59:88) Aligned. Score:  34
    Sequences (59:89) Aligned. Score:  33
    Sequences (59:90) Aligned. Score:  35
    Sequences (59:91) Aligned. Score:  35
    Sequences (59:92) Aligned. Score:  32
    Sequences (59:93) Aligned. Score:  64
    Sequences (59:94) Aligned. Score:  30
    Sequences (59:95) Aligned. Score:  26
    Sequences (59:96) Aligned. Score:  28
    Sequences (59:97) Aligned. Score:  74
    Sequences (59:98) Aligned. Score:  32
    Sequences (59:99) Aligned. Score:  62
    Sequences (59:100) Aligned. Score:  40
    Sequences (59:101) Aligned. Score:  36
    Sequences (59:102) Aligned. Score:  35
    Sequences (60:61) Aligned. Score:  29
    Sequences (60:62) Aligned. Score:  27
    Sequences (60:63) Aligned. Score:  36
    Sequences (60:64) Aligned. Score:  74
    Sequences (60:65) Aligned. Score:  39
    Sequences (60:66) Aligned. Score:  95
    Sequences (60:67) Aligned. Score:  29
    Sequences (60:68) Aligned. Score:  99
    Sequences (60:69) Aligned. Score:  29
    Sequences (60:70) Aligned. Score:  29
    Sequences (60:71) Aligned. Score:  65
    Sequences (60:72) Aligned. Score:  63
    Sequences (60:73) Aligned. Score:  28
    Sequences (60:74) Aligned. Score:  17
    Sequences (60:75) Aligned. Score:  29
    Sequences (60:76) Aligned. Score:  30
    Sequences (60:77) Aligned. Score:  6
    Sequences (60:78) Aligned. Score:  29
    Sequences (60:79) Aligned. Score:  63
    Sequences (60:80) Aligned. Score:  33
    Sequences (60:81) Aligned. Score:  29
    Sequences (60:82) Aligned. Score:  75
    Sequences (60:83) Aligned. Score:  43
    Sequences (60:84) Aligned. Score:  31
    Sequences (60:85) Aligned. Score:  31
    Sequences (60:86) Aligned. Score:  29
    Sequences (60:87) Aligned. Score:  30
    Sequences (60:88) Aligned. Score:  33
    Sequences (60:89) Aligned. Score:  29
    Sequences (60:90) Aligned. Score:  29
    Sequences (60:91) Aligned. Score:  34
    Sequences (60:92) Aligned. Score:  100
    Sequences (60:93) Aligned. Score:  29
    Sequences (60:94) Aligned. Score:  29
    Sequences (60:95) Aligned. Score:  50
    Sequences (60:96) Aligned. Score:  63
    Sequences (60:97) Aligned. Score:  38
    Sequences (60:98) Aligned. Score:  96
    Sequences (60:99) Aligned. Score:  29
    Sequences (60:100) Aligned. Score:  36
    Sequences (60:101) Aligned. Score:  32
    Sequences (60:102) Aligned. Score:  30
    Sequences (61:62) Aligned. Score:  20
    Sequences (61:63) Aligned. Score:  33
    Sequences (61:64) Aligned. Score:  30
    Sequences (61:65) Aligned. Score:  75
    Sequences (61:66) Aligned. Score:  25
    Sequences (61:67) Aligned. Score:  91
    Sequences (61:68) Aligned. Score:  29
    Sequences (61:69) Aligned. Score:  99
    Sequences (61:70) Aligned. Score:  61
    Sequences (61:71) Aligned. Score:  29
    Sequences (61:72) Aligned. Score:  27
    Sequences (61:73) Aligned. Score:  60
    Sequences (61:74) Aligned. Score:  15
    Sequences (61:75) Aligned. Score:  32
    Sequences (61:76) Aligned. Score:  30
    Sequences (61:77) Aligned. Score:  9
    Sequences (61:78) Aligned. Score:  28
    Sequences (61:79) Aligned. Score:  28
    Sequences (61:80) Aligned. Score:  29
    Sequences (61:81) Aligned. Score:  30
    Sequences (61:82) Aligned. Score:  30
    Sequences (61:83) Aligned. Score:  80
    Sequences (61:84) Aligned. Score:  28
    Sequences (61:85) Aligned. Score:  28
    Sequences (61:86) Aligned. Score:  30
    Sequences (61:87) Aligned. Score:  30
    Sequences (61:88) Aligned. Score:  29
    Sequences (61:89) Aligned. Score:  30
    Sequences (61:90) Aligned. Score:  30
    Sequences (61:91) Aligned. Score:  36
    Sequences (61:92) Aligned. Score:  29
    Sequences (61:93) Aligned. Score:  100
    Sequences (61:94) Aligned. Score:  29
    Sequences (61:95) Aligned. Score:  24
    Sequences (61:96) Aligned. Score:  28
    Sequences (61:97) Aligned. Score:  70
    Sequences (61:98) Aligned. Score:  29
    Sequences (61:99) Aligned. Score:  91
    Sequences (61:100) Aligned. Score:  39
    Sequences (61:101) Aligned. Score:  34
    Sequences (61:102) Aligned. Score:  32
    Sequences (62:63) Aligned. Score:  30
    Sequences (62:64) Aligned. Score:  31
    Sequences (62:65) Aligned. Score:  31
    Sequences (62:66) Aligned. Score:  27
    Sequences (62:67) Aligned. Score:  20
    Sequences (62:68) Aligned. Score:  27
    Sequences (62:69) Aligned. Score:  20
    Sequences (62:70) Aligned. Score:  20
    Sequences (62:71) Aligned. Score:  28
    Sequences (62:72) Aligned. Score:  29
    Sequences (62:73) Aligned. Score:  21
    Sequences (62:74) Aligned. Score:  31
    Sequences (62:75) Aligned. Score:  33
    Sequences (62:76) Aligned. Score:  32
    Sequences (62:77) Aligned. Score:  14
    Sequences (62:78) Aligned. Score:  36
    Sequences (62:79) Aligned. Score:  28
    Sequences (62:80) Aligned. Score:  31
    Sequences (62:81) Aligned. Score:  37
    Sequences (62:82) Aligned. Score:  29
    Sequences (62:83) Aligned. Score:  37
    Sequences (62:84) Aligned. Score:  33
    Sequences (62:85) Aligned. Score:  33
    Sequences (62:86) Aligned. Score:  38
    Sequences (62:87) Aligned. Score:  38
    Sequences (62:88) Aligned. Score:  31
    Sequences (62:89) Aligned. Score:  37
    Sequences (62:90) Aligned. Score:  37
    Sequences (62:91) Aligned. Score:  31
    Sequences (62:92) Aligned. Score:  27
    Sequences (62:93) Aligned. Score:  20
    Sequences (62:94) Aligned. Score:  33
    Sequences (62:95) Aligned. Score:  28
    Sequences (62:96) Aligned. Score:  28
    Sequences (62:97) Aligned. Score:  29
    Sequences (62:98) Aligned. Score:  27
    Sequences (62:99) Aligned. Score:  18
    Sequences (62:100) Aligned. Score:  38
    Sequences (62:101) Aligned. Score:  37
    Sequences (62:102) Aligned. Score:  37
    Sequences (63:64) Aligned. Score:  36
    Sequences (63:65) Aligned. Score:  36
    Sequences (63:66) Aligned. Score:  33
    Sequences (63:67) Aligned. Score:  32
    Sequences (63:68) Aligned. Score:  36
    Sequences (63:69) Aligned. Score:  33
    Sequences (63:70) Aligned. Score:  28
    Sequences (63:71) Aligned. Score:  35
    Sequences (63:72) Aligned. Score:  36
    Sequences (63:73) Aligned. Score:  27
    Sequences (63:74) Aligned. Score:  23
    Sequences (63:75) Aligned. Score:  54
    Sequences (63:76) Aligned. Score:  51
    Sequences (63:77) Aligned. Score:  14
    Sequences (63:78) Aligned. Score:  51
    Sequences (63:79) Aligned. Score:  34
    Sequences (63:80) Aligned. Score:  48
    Sequences (63:81) Aligned. Score:  51
    Sequences (63:82) Aligned. Score:  34
    Sequences (63:83) Aligned. Score:  41
    Sequences (63:84) Aligned. Score:  79
    Sequences (63:85) Aligned. Score:  79
    Sequences (63:86) Aligned. Score:  50
    Sequences (63:87) Aligned. Score:  51
    Sequences (63:88) Aligned. Score:  48
    Sequences (63:89) Aligned. Score:  51
    Sequences (63:90) Aligned. Score:  50
    Sequences (63:91) Aligned. Score:  51
    Sequences (63:92) Aligned. Score:  36
    Sequences (63:93) Aligned. Score:  33
    Sequences (63:94) Aligned. Score:  49
    Sequences (63:95) Aligned. Score:  32
    Sequences (63:96) Aligned. Score:  34
    Sequences (63:97) Aligned. Score:  42
    Sequences (63:98) Aligned. Score:  36
    Sequences (63:99) Aligned. Score:  32
    Sequences (63:100) Aligned. Score:  34
    Sequences (63:101) Aligned. Score:  51
    Sequences (63:102) Aligned. Score:  52
    Sequences (64:65) Aligned. Score:  46
    Sequences (64:66) Aligned. Score:  73
    Sequences (64:67) Aligned. Score:  28
    Sequences (64:68) Aligned. Score:  74
    Sequences (64:69) Aligned. Score:  30
    Sequences (64:70) Aligned. Score:  30
    Sequences (64:71) Aligned. Score:  65
    Sequences (64:72) Aligned. Score:  63
    Sequences (64:73) Aligned. Score:  28
    Sequences (64:74) Aligned. Score:  14
    Sequences (64:75) Aligned. Score:  30
    Sequences (64:76) Aligned. Score:  30
    Sequences (64:77) Aligned. Score:  8
    Sequences (64:78) Aligned. Score:  34
    Sequences (64:79) Aligned. Score:  62
    Sequences (64:80) Aligned. Score:  35
    Sequences (64:81) Aligned. Score:  32
    Sequences (64:82) Aligned. Score:  74
    Sequences (64:83) Aligned. Score:  45
    Sequences (64:84) Aligned. Score:  32
    Sequences (64:85) Aligned. Score:  33
    Sequences (64:86) Aligned. Score:  32
    Sequences (64:87) Aligned. Score:  32
    Sequences (64:88) Aligned. Score:  35
    Sequences (64:89) Aligned. Score:  32
    Sequences (64:90) Aligned. Score:  32
    Sequences (64:91) Aligned. Score:  34
    Sequences (64:92) Aligned. Score:  74
    Sequences (64:93) Aligned. Score:  30
    Sequences (64:94) Aligned. Score:  33
    Sequences (64:95) Aligned. Score:  53
    Sequences (64:96) Aligned. Score:  62
    Sequences (64:97) Aligned. Score:  40
    Sequences (64:98) Aligned. Score:  74
    Sequences (64:99) Aligned. Score:  28
    Sequences (64:100) Aligned. Score:  38
    Sequences (64:101) Aligned. Score:  34
    Sequences (64:102) Aligned. Score:  32
    Sequences (65:66) Aligned. Score:  32
    Sequences (65:67) Aligned. Score:  72
    Sequences (65:68) Aligned. Score:  39
    Sequences (65:69) Aligned. Score:  75
    Sequences (65:70) Aligned. Score:  77
    Sequences (65:71) Aligned. Score:  39
    Sequences (65:72) Aligned. Score:  37
    Sequences (65:73) Aligned. Score:  74
    Sequences (65:74) Aligned. Score:  22
    Sequences (65:75) Aligned. Score:  41
    Sequences (65:76) Aligned. Score:  39
    Sequences (65:77) Aligned. Score:  13
    Sequences (65:78) Aligned. Score:  43
    Sequences (65:79) Aligned. Score:  37
    Sequences (65:80) Aligned. Score:  39
    Sequences (65:81) Aligned. Score:  43
    Sequences (65:82) Aligned. Score:  39
    Sequences (65:83) Aligned. Score:  86
    Sequences (65:84) Aligned. Score:  32
    Sequences (65:85) Aligned. Score:  32
    Sequences (65:86) Aligned. Score:  39
    Sequences (65:87) Aligned. Score:  39
    Sequences (65:88) Aligned. Score:  39
    Sequences (65:89) Aligned. Score:  43
    Sequences (65:90) Aligned. Score:  39
    Sequences (65:91) Aligned. Score:  37
    Sequences (65:92) Aligned. Score:  39
    Sequences (65:93) Aligned. Score:  75
    Sequences (65:94) Aligned. Score:  43
    Sequences (65:95) Aligned. Score:  32
    Sequences (65:96) Aligned. Score:  37
    Sequences (65:97) Aligned. Score:  75
    Sequences (65:98) Aligned. Score:  39
    Sequences (65:99) Aligned. Score:  72
    Sequences (65:100) Aligned. Score:  56
    Sequences (65:101) Aligned. Score:  44
    Sequences (65:102) Aligned. Score:  46
    Sequences (66:67) Aligned. Score:  25
    Sequences (66:68) Aligned. Score:  95
    Sequences (66:69) Aligned. Score:  25
    Sequences (66:70) Aligned. Score:  26
    Sequences (66:71) Aligned. Score:  63
    Sequences (66:72) Aligned. Score:  61
    Sequences (66:73) Aligned. Score:  25
    Sequences (66:74) Aligned. Score:  9
    Sequences (66:75) Aligned. Score:  25
    Sequences (66:76) Aligned. Score:  26
    Sequences (66:77) Aligned. Score:  3
    Sequences (66:78) Aligned. Score:  27
    Sequences (66:79) Aligned. Score:  62
    Sequences (66:80) Aligned. Score:  32
    Sequences (66:81) Aligned. Score:  26
    Sequences (66:82) Aligned. Score:  74
    Sequences (66:83) Aligned. Score:  33
    Sequences (66:84) Aligned. Score:  30
    Sequences (66:85) Aligned. Score:  30
    Sequences (66:86) Aligned. Score:  26
    Sequences (66:87) Aligned. Score:  26
    Sequences (66:88) Aligned. Score:  32
    Sequences (66:89) Aligned. Score:  26
    Sequences (66:90) Aligned. Score:  26
    Sequences (66:91) Aligned. Score:  29
    Sequences (66:92) Aligned. Score:  95
    Sequences (66:93) Aligned. Score:  25
    Sequences (66:94) Aligned. Score:  27
    Sequences (66:95) Aligned. Score:  50
    Sequences (66:96) Aligned. Score:  62
    Sequences (66:97) Aligned. Score:  31
    Sequences (66:98) Aligned. Score:  99
    Sequences (66:99) Aligned. Score:  25
    Sequences (66:100) Aligned. Score:  34
    Sequences (66:101) Aligned. Score:  28
    Sequences (66:102) Aligned. Score:  32
    Sequences (67:68) Aligned. Score:  29
    Sequences (67:69) Aligned. Score:  90
    Sequences (67:70) Aligned. Score:  61
    Sequences (67:71) Aligned. Score:  28
    Sequences (67:72) Aligned. Score:  26
    Sequences (67:73) Aligned. Score:  59
    Sequences (67:74) Aligned. Score:  15
    Sequences (67:75) Aligned. Score:  31
    Sequences (67:76) Aligned. Score:  29
    Sequences (67:77) Aligned. Score:  9
    Sequences (67:78) Aligned. Score:  27
    Sequences (67:79) Aligned. Score:  28
    Sequences (67:80) Aligned. Score:  30
    Sequences (67:81) Aligned. Score:  29
    Sequences (67:82) Aligned. Score:  29
    Sequences (67:83) Aligned. Score:  78
    Sequences (67:84) Aligned. Score:  27
    Sequences (67:85) Aligned. Score:  27
    Sequences (67:86) Aligned. Score:  28
    Sequences (67:87) Aligned. Score:  29
    Sequences (67:88) Aligned. Score:  30
    Sequences (67:89) Aligned. Score:  29
    Sequences (67:90) Aligned. Score:  29
    Sequences (67:91) Aligned. Score:  36
    Sequences (67:92) Aligned. Score:  29
    Sequences (67:93) Aligned. Score:  91
    Sequences (67:94) Aligned. Score:  28
    Sequences (67:95) Aligned. Score:  23
    Sequences (67:96) Aligned. Score:  28
    Sequences (67:97) Aligned. Score:  68
    Sequences (67:98) Aligned. Score:  29
    Sequences (67:99) Aligned. Score:  99
    Sequences (67:100) Aligned. Score:  38
    Sequences (67:101) Aligned. Score:  34
    Sequences (67:102) Aligned. Score:  32
    Sequences (68:69) Aligned. Score:  29
    Sequences (68:70) Aligned. Score:  29
    Sequences (68:71) Aligned. Score:  65
    Sequences (68:72) Aligned. Score:  63
    Sequences (68:73) Aligned. Score:  28
    Sequences (68:74) Aligned. Score:  17
    Sequences (68:75) Aligned. Score:  29
    Sequences (68:76) Aligned. Score:  30
    Sequences (68:77) Aligned. Score:  3
    Sequences (68:78) Aligned. Score:  29
    Sequences (68:79) Aligned. Score:  63
    Sequences (68:80) Aligned. Score:  33
    Sequences (68:81) Aligned. Score:  29
    Sequences (68:82) Aligned. Score:  75
    Sequences (68:83) Aligned. Score:  43
    Sequences (68:84) Aligned. Score:  31
    Sequences (68:85) Aligned. Score:  31
    Sequences (68:86) Aligned. Score:  29
    Sequences (68:87) Aligned. Score:  30
    Sequences (68:88) Aligned. Score:  33
    Sequences (68:89) Aligned. Score:  29
    Sequences (68:90) Aligned. Score:  29
    Sequences (68:91) Aligned. Score:  34
    Sequences (68:92) Aligned. Score:  99
    Sequences (68:93) Aligned. Score:  29
    Sequences (68:94) Aligned. Score:  29
    Sequences (68:95) Aligned. Score:  50
    Sequences (68:96) Aligned. Score:  63
    Sequences (68:97) Aligned. Score:  38
    Sequences (68:98) Aligned. Score:  96
    Sequences (68:99) Aligned. Score:  29
    Sequences (68:100) Aligned. Score:  36
    Sequences (68:101) Aligned. Score:  32
    Sequences (68:102) Aligned. Score:  30
    Sequences (69:70) Aligned. Score:  61
    Sequences (69:71) Aligned. Score:  29
    Sequences (69:72) Aligned. Score:  27
    Sequences (69:73) Aligned. Score:  59
    Sequences (69:74) Aligned. Score:  15
    Sequences (69:75) Aligned. Score:  32
    Sequences (69:76) Aligned. Score:  30
    Sequences (69:77) Aligned. Score:  9
    Sequences (69:78) Aligned. Score:  28
    Sequences (69:79) Aligned. Score:  27
    Sequences (69:80) Aligned. Score:  28
    Sequences (69:81) Aligned. Score:  30
    Sequences (69:82) Aligned. Score:  30
    Sequences (69:83) Aligned. Score:  80
    Sequences (69:84) Aligned. Score:  28
    Sequences (69:85) Aligned. Score:  28
    Sequences (69:86) Aligned. Score:  29
    Sequences (69:87) Aligned. Score:  30
    Sequences (69:88) Aligned. Score:  28
    Sequences (69:89) Aligned. Score:  30
    Sequences (69:90) Aligned. Score:  29
    Sequences (69:91) Aligned. Score:  35
    Sequences (69:92) Aligned. Score:  29
    Sequences (69:93) Aligned. Score:  99
    Sequences (69:94) Aligned. Score:  29
    Sequences (69:95) Aligned. Score:  23
    Sequences (69:96) Aligned. Score:  27
    Sequences (69:97) Aligned. Score:  70
    Sequences (69:98) Aligned. Score:  29
    Sequences (69:99) Aligned. Score:  91
    Sequences (69:100) Aligned. Score:  39
    Sequences (69:101) Aligned. Score:  34
    Sequences (69:102) Aligned. Score:  32
    Sequences (70:71) Aligned. Score:  30
    Sequences (70:72) Aligned. Score:  26
    Sequences (70:73) Aligned. Score:  80
    Sequences (70:74) Aligned. Score:  19
    Sequences (70:75) Aligned. Score:  31
    Sequences (70:76) Aligned. Score:  30
    Sequences (70:77) Aligned. Score:  14
    Sequences (70:78) Aligned. Score:  35
    Sequences (70:79) Aligned. Score:  27
    Sequences (70:80) Aligned. Score:  32
    Sequences (70:81) Aligned. Score:  33
    Sequences (70:82) Aligned. Score:  30
    Sequences (70:83) Aligned. Score:  82
    Sequences (70:84) Aligned. Score:  29
    Sequences (70:85) Aligned. Score:  30
    Sequences (70:86) Aligned. Score:  32
    Sequences (70:87) Aligned. Score:  32
    Sequences (70:88) Aligned. Score:  32
    Sequences (70:89) Aligned. Score:  33
    Sequences (70:90) Aligned. Score:  32
    Sequences (70:91) Aligned. Score:  37
    Sequences (70:92) Aligned. Score:  29
    Sequences (70:93) Aligned. Score:  61
    Sequences (70:94) Aligned. Score:  36
    Sequences (70:95) Aligned. Score:  28
    Sequences (70:96) Aligned. Score:  27
    Sequences (70:97) Aligned. Score:  79
    Sequences (70:98) Aligned. Score:  30
    Sequences (70:99) Aligned. Score:  61
    Sequences (70:100) Aligned. Score:  36
    Sequences (70:101) Aligned. Score:  35
    Sequences (70:102) Aligned. Score:  31
    Sequences (71:72) Aligned. Score:  86
    Sequences (71:73) Aligned. Score:  27
    Sequences (71:74) Aligned. Score:  18
    Sequences (71:75) Aligned. Score:  35
    Sequences (71:76) Aligned. Score:  34
    Sequences (71:77) Aligned. Score:  4
    Sequences (71:78) Aligned. Score:  31
    Sequences (71:79) Aligned. Score:  57
    Sequences (71:80) Aligned. Score:  29
    Sequences (71:81) Aligned. Score:  32
    Sequences (71:82) Aligned. Score:  67
    Sequences (71:83) Aligned. Score:  43
    Sequences (71:84) Aligned. Score:  35
    Sequences (71:85) Aligned. Score:  35
    Sequences (71:86) Aligned. Score:  32
    Sequences (71:87) Aligned. Score:  32
    Sequences (71:88) Aligned. Score:  29
    Sequences (71:89) Aligned. Score:  32
    Sequences (71:90) Aligned. Score:  32
    Sequences (71:91) Aligned. Score:  33
    Sequences (71:92) Aligned. Score:  65
    Sequences (71:93) Aligned. Score:  29
    Sequences (71:94) Aligned. Score:  31
    Sequences (71:95) Aligned. Score:  48
    Sequences (71:96) Aligned. Score:  57
    Sequences (71:97) Aligned. Score:  38
    Sequences (71:98) Aligned. Score:  65
    Sequences (71:99) Aligned. Score:  28
    Sequences (71:100) Aligned. Score:  36
    Sequences (71:101) Aligned. Score:  34
    Sequences (71:102) Aligned. Score:  33
    Sequences (72:73) Aligned. Score:  25
    Sequences (72:74) Aligned. Score:  14
    Sequences (72:75) Aligned. Score:  35
    Sequences (72:76) Aligned. Score:  36
    Sequences (72:77) Aligned. Score:  6
    Sequences (72:78) Aligned. Score:  34
    Sequences (72:79) Aligned. Score:  56
    Sequences (72:80) Aligned. Score:  31
    Sequences (72:81) Aligned. Score:  30
    Sequences (72:82) Aligned. Score:  64
    Sequences (72:83) Aligned. Score:  41
    Sequences (72:84) Aligned. Score:  36
    Sequences (72:85) Aligned. Score:  35
    Sequences (72:86) Aligned. Score:  29
    Sequences (72:87) Aligned. Score:  30
    Sequences (72:88) Aligned. Score:  31
    Sequences (72:89) Aligned. Score:  30
    Sequences (72:90) Aligned. Score:  29
    Sequences (72:91) Aligned. Score:  34
    Sequences (72:92) Aligned. Score:  63
    Sequences (72:93) Aligned. Score:  27
    Sequences (72:94) Aligned. Score:  34
    Sequences (72:95) Aligned. Score:  44
    Sequences (72:96) Aligned. Score:  56
    Sequences (72:97) Aligned. Score:  37
    Sequences (72:98) Aligned. Score:  62
    Sequences (72:99) Aligned. Score:  26
    Sequences (72:100) Aligned. Score:  35
    Sequences (72:101) Aligned. Score:  34
    Sequences (72:102) Aligned. Score:  32
    Sequences (73:74) Aligned. Score:  12
    Sequences (73:75) Aligned. Score:  29
    Sequences (73:76) Aligned. Score:  28
    Sequences (73:77) Aligned. Score:  7
    Sequences (73:78) Aligned. Score:  30
    Sequences (73:79) Aligned. Score:  26
    Sequences (73:80) Aligned. Score:  29
    Sequences (73:81) Aligned. Score:  33
    Sequences (73:82) Aligned. Score:  27
    Sequences (73:83) Aligned. Score:  84
    Sequences (73:84) Aligned. Score:  25
    Sequences (73:85) Aligned. Score:  25
    Sequences (73:86) Aligned. Score:  33
    Sequences (73:87) Aligned. Score:  33
    Sequences (73:88) Aligned. Score:  29
    Sequences (73:89) Aligned. Score:  33
    Sequences (73:90) Aligned. Score:  33
    Sequences (73:91) Aligned. Score:  30
    Sequences (73:92) Aligned. Score:  28
    Sequences (73:93) Aligned. Score:  60
    Sequences (73:94) Aligned. Score:  31
    Sequences (73:95) Aligned. Score:  24
    Sequences (73:96) Aligned. Score:  26
    Sequences (73:97) Aligned. Score:  74
    Sequences (73:98) Aligned. Score:  28
    Sequences (73:99) Aligned. Score:  59
    Sequences (73:100) Aligned. Score:  32
    Sequences (73:101) Aligned. Score:  31
    Sequences (73:102) Aligned. Score:  28
    Sequences (74:75) Aligned. Score:  22
    Sequences (74:76) Aligned. Score:  22
    Sequences (74:77) Aligned. Score:  36
    Sequences (74:78) Aligned. Score:  25
    Sequences (74:79) Aligned. Score:  16
    Sequences (74:80) Aligned. Score:  20
    Sequences (74:81) Aligned. Score:  26
    Sequences (74:82) Aligned. Score:  17
    Sequences (74:83) Aligned. Score:  21
    Sequences (74:84) Aligned. Score:  20
    Sequences (74:85) Aligned. Score:  20
    Sequences (74:86) Aligned. Score:  26
    Sequences (74:87) Aligned. Score:  26
    Sequences (74:88) Aligned. Score:  20
    Sequences (74:89) Aligned. Score:  26
    Sequences (74:90) Aligned. Score:  25
    Sequences (74:91) Aligned. Score:  28
    Sequences (74:92) Aligned. Score:  17
    Sequences (74:93) Aligned. Score:  15
    Sequences (74:94) Aligned. Score:  27
    Sequences (74:95) Aligned. Score:  18
    Sequences (74:96) Aligned. Score:  16
    Sequences (74:97) Aligned. Score:  20
    Sequences (74:98) Aligned. Score:  17
    Sequences (74:99) Aligned. Score:  15
    Sequences (74:100) Aligned. Score:  20
    Sequences (74:101) Aligned. Score:  27
    Sequences (74:102) Aligned. Score:  25
    Sequences (75:76) Aligned. Score:  94
    Sequences (75:77) Aligned. Score:  16
    Sequences (75:78) Aligned. Score:  54
    Sequences (75:79) Aligned. Score:  32
    Sequences (75:80) Aligned. Score:  46
    Sequences (75:81) Aligned. Score:  66
    Sequences (75:82) Aligned. Score:  30
    Sequences (75:83) Aligned. Score:  47
    Sequences (75:84) Aligned. Score:  51
    Sequences (75:85) Aligned. Score:  52
    Sequences (75:86) Aligned. Score:  63
    Sequences (75:87) Aligned. Score:  64
    Sequences (75:88) Aligned. Score:  46
    Sequences (75:89) Aligned. Score:  66
    Sequences (75:90) Aligned. Score:  63
    Sequences (75:91) Aligned. Score:  63
    Sequences (75:92) Aligned. Score:  29
    Sequences (75:93) Aligned. Score:  32
    Sequences (75:94) Aligned. Score:  53
    Sequences (75:95) Aligned. Score:  30
    Sequences (75:96) Aligned. Score:  32
    Sequences (75:97) Aligned. Score:  46
    Sequences (75:98) Aligned. Score:  29
    Sequences (75:99) Aligned. Score:  31
    Sequences (75:100) Aligned. Score:  37
    Sequences (75:101) Aligned. Score:  73
    Sequences (75:102) Aligned. Score:  74
    Sequences (76:77) Aligned. Score:  15
    Sequences (76:78) Aligned. Score:  52
    Sequences (76:79) Aligned. Score:  30
    Sequences (76:80) Aligned. Score:  46
    Sequences (76:81) Aligned. Score:  64
    Sequences (76:82) Aligned. Score:  30
    Sequences (76:83) Aligned. Score:  45
    Sequences (76:84) Aligned. Score:  50
    Sequences (76:85) Aligned. Score:  51
    Sequences (76:86) Aligned. Score:  62
    Sequences (76:87) Aligned. Score:  63
    Sequences (76:88) Aligned. Score:  46
    Sequences (76:89) Aligned. Score:  64
    Sequences (76:90) Aligned. Score:  62
    Sequences (76:91) Aligned. Score:  61
    Sequences (76:92) Aligned. Score:  30
    Sequences (76:93) Aligned. Score:  30
    Sequences (76:94) Aligned. Score:  51
    Sequences (76:95) Aligned. Score:  30
    Sequences (76:96) Aligned. Score:  30
    Sequences (76:97) Aligned. Score:  44
    Sequences (76:98) Aligned. Score:  30
    Sequences (76:99) Aligned. Score:  29
    Sequences (76:100) Aligned. Score:  37
    Sequences (76:101) Aligned. Score:  72
    Sequences (76:102) Aligned. Score:  72
    Sequences (77:78) Aligned. Score:  12
    Sequences (77:79) Aligned. Score:  9
    Sequences (77:80) Aligned. Score:  14
    Sequences (77:81) Aligned. Score:  6
    Sequences (77:82) Aligned. Score:  3
    Sequences (77:83) Aligned. Score:  17
    Sequences (77:84) Aligned. Score:  11
    Sequences (77:85) Aligned. Score:  5
    Sequences (77:86) Aligned. Score:  16
    Sequences (77:87) Aligned. Score:  16
    Sequences (77:88) Aligned. Score:  14
    Sequences (77:89) Aligned. Score:  6
    Sequences (77:90) Aligned. Score:  16
    Sequences (77:91) Aligned. Score:  17
    Sequences (77:92) Aligned. Score:  6
    Sequences (77:93) Aligned. Score:  9
    Sequences (77:94) Aligned. Score:  12
    Sequences (77:95) Aligned. Score:  3
    Sequences (77:96) Aligned. Score:  3
    Sequences (77:97) Aligned. Score:  18
    Sequences (77:98) Aligned. Score:  3
    Sequences (77:99) Aligned. Score:  9
    Sequences (77:100) Aligned. Score:  16
    Sequences (77:101) Aligned. Score:  14
    Sequences (77:102) Aligned. Score:  13
    Sequences (78:79) Aligned. Score:  34
    Sequences (78:80) Aligned. Score:  48
    Sequences (78:81) Aligned. Score:  53
    Sequences (78:82) Aligned. Score:  34
    Sequences (78:83) Aligned. Score:  45
    Sequences (78:84) Aligned. Score:  53
    Sequences (78:85) Aligned. Score:  53
    Sequences (78:86) Aligned. Score:  55
    Sequences (78:87) Aligned. Score:  54
    Sequences (78:88) Aligned. Score:  48
    Sequences (78:89) Aligned. Score:  53
    Sequences (78:90) Aligned. Score:  55
    Sequences (78:91) Aligned. Score:  53
    Sequences (78:92) Aligned. Score:  29
    Sequences (78:93) Aligned. Score:  28
    Sequences (78:94) Aligned. Score:  92
    Sequences (78:95) Aligned. Score:  36
    Sequences (78:96) Aligned. Score:  34
    Sequences (78:97) Aligned. Score:  40
    Sequences (78:98) Aligned. Score:  29
    Sequences (78:99) Aligned. Score:  27
    Sequences (78:100) Aligned. Score:  41
    Sequences (78:101) Aligned. Score:  53
    Sequences (78:102) Aligned. Score:  54
    Sequences (79:80) Aligned. Score:  31
    Sequences (79:81) Aligned. Score:  29
    Sequences (79:82) Aligned. Score:  59
    Sequences (79:83) Aligned. Score:  39
    Sequences (79:84) Aligned. Score:  34
    Sequences (79:85) Aligned. Score:  33
    Sequences (79:86) Aligned. Score:  27
    Sequences (79:87) Aligned. Score:  28
    Sequences (79:88) Aligned. Score:  31
    Sequences (79:89) Aligned. Score:  29
    Sequences (79:90) Aligned. Score:  29
    Sequences (79:91) Aligned. Score:  33
    Sequences (79:92) Aligned. Score:  63
    Sequences (79:93) Aligned. Score:  28
    Sequences (79:94) Aligned. Score:  32
    Sequences (79:95) Aligned. Score:  47
    Sequences (79:96) Aligned. Score:  99
    Sequences (79:97) Aligned. Score:  35
    Sequences (79:98) Aligned. Score:  63
    Sequences (79:99) Aligned. Score:  27
    Sequences (79:100) Aligned. Score:  34
    Sequences (79:101) Aligned. Score:  30
    Sequences (79:102) Aligned. Score:  29
    Sequences (80:81) Aligned. Score:  45
    Sequences (80:82) Aligned. Score:  33
    Sequences (80:83) Aligned. Score:  47
    Sequences (80:84) Aligned. Score:  47
    Sequences (80:85) Aligned. Score:  46
    Sequences (80:86) Aligned. Score:  46
    Sequences (80:87) Aligned. Score:  46
    Sequences (80:88) Aligned. Score:  100
    Sequences (80:89) Aligned. Score:  45
    Sequences (80:90) Aligned. Score:  46
    Sequences (80:91) Aligned. Score:  45
    Sequences (80:92) Aligned. Score:  33
    Sequences (80:93) Aligned. Score:  29
    Sequences (80:94) Aligned. Score:  48
    Sequences (80:95) Aligned. Score:  35
    Sequences (80:96) Aligned. Score:  31
    Sequences (80:97) Aligned. Score:  46
    Sequences (80:98) Aligned. Score:  33
    Sequences (80:99) Aligned. Score:  30
    Sequences (80:100) Aligned. Score:  38
    Sequences (80:101) Aligned. Score:  47
    Sequences (80:102) Aligned. Score:  44
    Sequences (81:82) Aligned. Score:  32
    Sequences (81:83) Aligned. Score:  47
    Sequences (81:84) Aligned. Score:  49
    Sequences (81:85) Aligned. Score:  50
    Sequences (81:86) Aligned. Score:  88
    Sequences (81:87) Aligned. Score:  88
    Sequences (81:88) Aligned. Score:  45
    Sequences (81:89) Aligned. Score:  100
    Sequences (81:90) Aligned. Score:  88
    Sequences (81:91) Aligned. Score:  74
    Sequences (81:92) Aligned. Score:  29
    Sequences (81:93) Aligned. Score:  30
    Sequences (81:94) Aligned. Score:  52
    Sequences (81:95) Aligned. Score:  32
    Sequences (81:96) Aligned. Score:  29
    Sequences (81:97) Aligned. Score:  48
    Sequences (81:98) Aligned. Score:  29
    Sequences (81:99) Aligned. Score:  29
    Sequences (81:100) Aligned. Score:  38
    Sequences (81:101) Aligned. Score:  71
    Sequences (81:102) Aligned. Score:  66
    Sequences (82:83) Aligned. Score:  41
    Sequences (82:84) Aligned. Score:  33
    Sequences (82:85) Aligned. Score:  32
    Sequences (82:86) Aligned. Score:  32
    Sequences (82:87) Aligned. Score:  31
    Sequences (82:88) Aligned. Score:  33
    Sequences (82:89) Aligned. Score:  32
    Sequences (82:90) Aligned. Score:  32
    Sequences (82:91) Aligned. Score:  34
    Sequences (82:92) Aligned. Score:  75
    Sequences (82:93) Aligned. Score:  30
    Sequences (82:94) Aligned. Score:  34
    Sequences (82:95) Aligned. Score:  50
    Sequences (82:96) Aligned. Score:  59
    Sequences (82:97) Aligned. Score:  38
    Sequences (82:98) Aligned. Score:  74
    Sequences (82:99) Aligned. Score:  29
    Sequences (82:100) Aligned. Score:  37
    Sequences (82:101) Aligned. Score:  34
    Sequences (82:102) Aligned. Score:  31
    Sequences (83:84) Aligned. Score:  35
    Sequences (83:85) Aligned. Score:  35
    Sequences (83:86) Aligned. Score:  47
    Sequences (83:87) Aligned. Score:  49
    Sequences (83:88) Aligned. Score:  47
    Sequences (83:89) Aligned. Score:  47
    Sequences (83:90) Aligned. Score:  47
    Sequences (83:91) Aligned. Score:  49
    Sequences (83:92) Aligned. Score:  43
    Sequences (83:93) Aligned. Score:  80
    Sequences (83:94) Aligned. Score:  45
    Sequences (83:95) Aligned. Score:  37
    Sequences (83:96) Aligned. Score:  39
    Sequences (83:97) Aligned. Score:  74
    Sequences (83:98) Aligned. Score:  43
    Sequences (83:99) Aligned. Score:  78
    Sequences (83:100) Aligned. Score:  62
    Sequences (83:101) Aligned. Score:  49
    Sequences (83:102) Aligned. Score:  50
    Sequences (84:85) Aligned. Score:  95
    Sequences (84:86) Aligned. Score:  49
    Sequences (84:87) Aligned. Score:  48
    Sequences (84:88) Aligned. Score:  47
    Sequences (84:89) Aligned. Score:  49
    Sequences (84:90) Aligned. Score:  49
    Sequences (84:91) Aligned. Score:  50
    Sequences (84:92) Aligned. Score:  31
    Sequences (84:93) Aligned. Score:  28
    Sequences (84:94) Aligned. Score:  51
    Sequences (84:95) Aligned. Score:  31
    Sequences (84:96) Aligned. Score:  34
    Sequences (84:97) Aligned. Score:  38
    Sequences (84:98) Aligned. Score:  31
    Sequences (84:99) Aligned. Score:  27
    Sequences (84:100) Aligned. Score:  32
    Sequences (84:101) Aligned. Score:  50
    Sequences (84:102) Aligned. Score:  47
    Sequences (85:86) Aligned. Score:  50
    Sequences (85:87) Aligned. Score:  49
    Sequences (85:88) Aligned. Score:  46
    Sequences (85:89) Aligned. Score:  50
    Sequences (85:90) Aligned. Score:  50
    Sequences (85:91) Aligned. Score:  51
    Sequences (85:92) Aligned. Score:  31
    Sequences (85:93) Aligned. Score:  28
    Sequences (85:94) Aligned. Score:  51
    Sequences (85:95) Aligned. Score:  31
    Sequences (85:96) Aligned. Score:  33
    Sequences (85:97) Aligned. Score:  38
    Sequences (85:98) Aligned. Score:  31
    Sequences (85:99) Aligned. Score:  27
    Sequences (85:100) Aligned. Score:  34
    Sequences (85:101) Aligned. Score:  51
    Sequences (85:102) Aligned. Score:  48
    Sequences (86:87) Aligned. Score:  99
    Sequences (86:88) Aligned. Score:  46
    Sequences (86:89) Aligned. Score:  88
    Sequences (86:90) Aligned. Score:  98
    Sequences (86:91) Aligned. Score:  72
    Sequences (86:92) Aligned. Score:  29
    Sequences (86:93) Aligned. Score:  30
    Sequences (86:94) Aligned. Score:  54
    Sequences (86:95) Aligned. Score:  32
    Sequences (86:96) Aligned. Score:  27
    Sequences (86:97) Aligned. Score:  48
    Sequences (86:98) Aligned. Score:  29
    Sequences (86:99) Aligned. Score:  28
    Sequences (86:100) Aligned. Score:  37
    Sequences (86:101) Aligned. Score:  68
    Sequences (86:102) Aligned. Score:  62
    Sequences (87:88) Aligned. Score:  46
    Sequences (87:89) Aligned. Score:  88
    Sequences (87:90) Aligned. Score:  97
    Sequences (87:91) Aligned. Score:  72
    Sequences (87:92) Aligned. Score:  30
    Sequences (87:93) Aligned. Score:  30
    Sequences (87:94) Aligned. Score:  53
    Sequences (87:95) Aligned. Score:  31
    Sequences (87:96) Aligned. Score:  28
    Sequences (87:97) Aligned. Score:  48
    Sequences (87:98) Aligned. Score:  30
    Sequences (87:99) Aligned. Score:  29
    Sequences (87:100) Aligned. Score:  37
    Sequences (87:101) Aligned. Score:  69
    Sequences (87:102) Aligned. Score:  62
    Sequences (88:89) Aligned. Score:  45
    Sequences (88:90) Aligned. Score:  46
    Sequences (88:91) Aligned. Score:  45
    Sequences (88:92) Aligned. Score:  33
    Sequences (88:93) Aligned. Score:  29
    Sequences (88:94) Aligned. Score:  48
    Sequences (88:95) Aligned. Score:  35
    Sequences (88:96) Aligned. Score:  31
    Sequences (88:97) Aligned. Score:  46
    Sequences (88:98) Aligned. Score:  33
    Sequences (88:99) Aligned. Score:  30
    Sequences (88:100) Aligned. Score:  38
    Sequences (88:101) Aligned. Score:  47
    Sequences (88:102) Aligned. Score:  44
    Sequences (89:90) Aligned. Score:  88
    Sequences (89:91) Aligned. Score:  74
    Sequences (89:92) Aligned. Score:  29
    Sequences (89:93) Aligned. Score:  30
    Sequences (89:94) Aligned. Score:  52
    Sequences (89:95) Aligned. Score:  32
    Sequences (89:96) Aligned. Score:  29
    Sequences (89:97) Aligned. Score:  48
    Sequences (89:98) Aligned. Score:  29
    Sequences (89:99) Aligned. Score:  29
    Sequences (89:100) Aligned. Score:  38
    Sequences (89:101) Aligned. Score:  71
    Sequences (89:102) Aligned. Score:  66
    Sequences (90:91) Aligned. Score:  72
    Sequences (90:92) Aligned. Score:  29
    Sequences (90:93) Aligned. Score:  30
    Sequences (90:94) Aligned. Score:  54
    Sequences (90:95) Aligned. Score:  31
    Sequences (90:96) Aligned. Score:  29
    Sequences (90:97) Aligned. Score:  48
    Sequences (90:98) Aligned. Score:  29
    Sequences (90:99) Aligned. Score:  29
    Sequences (90:100) Aligned. Score:  37
    Sequences (90:101) Aligned. Score:  68
    Sequences (90:102) Aligned. Score:  62
    Sequences (91:92) Aligned. Score:  34
    Sequences (91:93) Aligned. Score:  36
    Sequences (91:94) Aligned. Score:  53
    Sequences (91:95) Aligned. Score:  33
    Sequences (91:96) Aligned. Score:  33
    Sequences (91:97) Aligned. Score:  44
    Sequences (91:98) Aligned. Score:  32
    Sequences (91:99) Aligned. Score:  36
    Sequences (91:100) Aligned. Score:  37
    Sequences (91:101) Aligned. Score:  71
    Sequences (91:102) Aligned. Score:  71
    Sequences (92:93) Aligned. Score:  29
    Sequences (92:94) Aligned. Score:  29
    Sequences (92:95) Aligned. Score:  50
    Sequences (92:96) Aligned. Score:  63
    Sequences (92:97) Aligned. Score:  38
    Sequences (92:98) Aligned. Score:  96
    Sequences (92:99) Aligned. Score:  29
    Sequences (92:100) Aligned. Score:  36
    Sequences (92:101) Aligned. Score:  32
    Sequences (92:102) Aligned. Score:  30
    Sequences (93:94) Aligned. Score:  29
    Sequences (93:95) Aligned. Score:  24
    Sequences (93:96) Aligned. Score:  28
    Sequences (93:97) Aligned. Score:  70
    Sequences (93:98) Aligned. Score:  29
    Sequences (93:99) Aligned. Score:  91
    Sequences (93:100) Aligned. Score:  39
    Sequences (93:101) Aligned. Score:  34
    Sequences (93:102) Aligned. Score:  32
    Sequences (94:95) Aligned. Score:  35
    Sequences (94:96) Aligned. Score:  32
    Sequences (94:97) Aligned. Score:  40
    Sequences (94:98) Aligned. Score:  29
    Sequences (94:99) Aligned. Score:  27
    Sequences (94:100) Aligned. Score:  42
    Sequences (94:101) Aligned. Score:  51
    Sequences (94:102) Aligned. Score:  51
    Sequences (95:96) Aligned. Score:  51
    Sequences (95:97) Aligned. Score:  38
    Sequences (95:98) Aligned. Score:  51
    Sequences (95:99) Aligned. Score:  23
    Sequences (95:100) Aligned. Score:  36
    Sequences (95:101) Aligned. Score:  31
    Sequences (95:102) Aligned. Score:  29
    Sequences (96:97) Aligned. Score:  35
    Sequences (96:98) Aligned. Score:  63
    Sequences (96:99) Aligned. Score:  27
    Sequences (96:100) Aligned. Score:  34
    Sequences (96:101) Aligned. Score:  30
    Sequences (96:102) Aligned. Score:  29
    Sequences (97:98) Aligned. Score:  38
    Sequences (97:99) Aligned. Score:  68
    Sequences (97:100) Aligned. Score:  55
    Sequences (97:101) Aligned. Score:  44
    Sequences (97:102) Aligned. Score:  48
    Sequences (98:99) Aligned. Score:  29
    Sequences (98:100) Aligned. Score:  36
    Sequences (98:101) Aligned. Score:  32
    Sequences (98:102) Aligned. Score:  30
    Sequences (99:100) Aligned. Score:  38
    Sequences (99:101) Aligned. Score:  34
    Sequences (99:102) Aligned. Score:  32
    Sequences (100:101) Aligned. Score:  38
    Sequences (100:102) Aligned. Score:  38
    Sequences (101:102) Aligned. Score:  93

    Guide tree file created:   [./seqalign-1234567890.1234.dnd]

    Start of Multiple Alignment

    Sequence:27     Score:1663
    Sequence:60     Score:2788
    Sequence:68     Score:2903
    Sequence:92     Score:2636
    Sequence:29     Score:2617
    Sequence:98     Score:2663
    Sequence:35     Score:2635
    Sequence:66     Score:2648
    Sequence:8     Score:1579
    Sequence:7     Score:1584
    Sequence:74     Score:1690
    Sequence:18     Score:1729
    Sequence:6     Score:1649
    Sequence:21     Score:1370
    Sequence:82     Score:1493
    Sequence:64     Score:1460
    Sequence:17     Score:1546
    Sequence:38     Score:1437
    Sequence:56     Score:1497
    Sequence:58     Score:1547
    Sequence:11     Score:1410
    Sequence:79     Score:1476
    Sequence:96     Score:1530
    Sequence:16     Score:1390
    Sequence:19     Score:1511
    Sequence:10     Score:1216
    Sequence:13     Score:1245
    Sequence:71     Score:1269
    Sequence:23     Score:1410
    Sequence:72     Score:1449
    Sequence:14     Score:1444
    Sequence:52     Score:1466
    Sequence:53     Score:1494
    Sequence:37     Score:1132
    Sequence:5     Score:1275
    Sequence:50     Score:1316
    Sequence:95     Score:1361
    Sequence:22     Score:360
    Sequence:83     Score:363
    Sequence:15     Score:402
    Sequence:51     Score:404
    Sequence:54     Score:405
    Sequence:65     Score:403
    Sequence:9     Score:812
    Sequence:12     Score:878
    Sequence:70     Score:942
    Sequence:97     Score:397
    Sequence:24     Score:903
    Sequence:73     Score:948
    Sequence:28     Score:887
    Sequence:61     Score:915
    Sequence:69     Score:930
    Sequence:93     Score:956
    Sequence:30     Score:962
    Sequence:36     Score:977
    Sequence:67     Score:980
    Sequence:99     Score:1001
    Sequence:39     Score:942
    Sequence:57     Score:973
    Sequence:59     Score:1011
    Sequence:100     Score:888
    Sequence:31     Score:861
    Sequence:91     Score:823
    Sequence:55     Score:930
    Sequence:81     Score:958
    Sequence:89     Score:970
    Sequence:87     Score:976
    Sequence:86     Score:995
    Sequence:90     Score:1015
    Sequence:44     Score:960
    Sequence:25     Score:960
    Sequence:32     Score:979
    Sequence:45     Score:973
    Sequence:48     Score:987
    Sequence:101     Score:967
    Sequence:43     Score:969
    Sequence:46     Score:1018
    Sequence:47     Score:997
    Sequence:102     Score:1018
    Sequence:49     Score:1036
    Sequence:42     Score:1016
    Sequence:75     Score:1032
    Sequence:40     Score:1041
    Sequence:76     Score:1064
    Sequence:41     Score:1013
    Sequence:20     Score:1007
    Sequence:78     Score:942
    Sequence:94     Score:969
    Sequence:3     Score:934
    Sequence:63     Score:951
    Sequence:4     Score:956
    Sequence:85     Score:989
    Sequence:34     Score:1002
    Sequence:84     Score:1014
    Sequence:26     Score:946
    Sequence:33     Score:983
    Sequence:80     Score:1012
    Sequence:88     Score:1038
    Sequence:62     Score:749
    Sequence:77     Score:1070
    Alignment Score 1454950

    CLUSTAL-Alignment file created  [./seqalign-1234567890.1234.out]

    Processing /homes/user/test/qa/domainalign-keep/daf/54894.daf

    /shared/software/bin/clustalw -type=protein -profile1=./seqalign-1234567890.1234.aln -sequences -profile2=./seqalign-1234567890.1234.seqs -MATRIX=BLOSUM -GAPOPEN=10 -GAPEXT=0.5 -outfile=./seqalign-1234567890.1234.out

    Processing /homes/user/test/qa/domainalign-keep/daf/55074.daf

    /shared/software/bin/clustalw -type=protein -profile1=./seqalign-1234567890.1234.aln -sequences -profile2=./seqalign-1234567890.1234.seqs -MATRIX=BLOSUM -GAPOPEN=10 -GAPEXT=0.5 -outfile=./seqalign-1234567890.1234.out

Go to the output files for this example

## 7.0 KNOWN BUGS & WARNINGS

None.

## 8.0 NOTES

1. Use of CLUSTAL
clustalw must be installed on the system that is running SEQSEARCH.
2. Empty domain hits file (input)
If no sequences are given in the domain hits file then no extended alignment will be generated.

### 8.1 GLOSSARY OF FILE TYPES

FILE TYPE | FORMAT | DESCRIPTION | CREATED BY | SEE ALSO

Domain hits file

DHF format (FASTA-like).

Database hits (sequences) with domain classification information. The hits are relatives to a SCOP or CATH family (or other node in the structural hierarchies) and are found from a search of a discriminating element (e.g. a protein signature, hidden Markov model, simple frequency matrix, Gribskov profile or Hennikoff profile) against a sequence database.

SEQSEARCH (hits retrieved by PSIBLAST). SIGSCAN (hits retrieved by sparse protein signature). LIBSCAN (hits retrieved by various types of HMM and profile).

N.A.

Domain alignment file

DAF format (CLUSTAL-like format with domain classification information).

Contains a sequence alignment of domains belonging to the same SCOP or CATH family. The file is annotated with domain family classification information.

DOMAINALIGN (structure-based sequence alignment of domains of known structure).

DOMAINALIGN alignments can be extended with sequence relatives (of unknown structure) to the family in question by using SEQALIGN.

None

## 9.0 DESCRIPTION

The generation of sequence alignments for large datasets such as SCOP or CATH potentially requires a lot of time for preparation of datasets, running jobs and so on, in addition to the compute time required for the alignments themselves. SEQALIGN will generate an extended alignment for each seed alignment in a directory for which a file of sequences is available, by using CLUSTALW. Sequences are added one by one to the appropriate seed alignment.

## 10.0 ALGORITHM

None.

## 11.0 RELATED APPLICATIONS

## See also

Program name | Description
--- | ---
cathparse | Generate DCF file from raw CATH files
domainalign | Generate alignments (DAF file) for nodes in a DCF file
domainnr | Remove redundant domains from a DCF file
domainrep | Reorder DCF file to identify representative structures
domainseqs | Add sequence records to a DCF file
domainsse | Add secondary structure records to a DCF file
helixturnhelix | Identify nucleic acid-binding motifs in protein sequences
libgen | Generate discriminating elements from alignments
matcher | Waterman-Eggert local alignment of two sequences
matgen3d | Generate a 3D-1D scoring matrix from CCF files
oalistat | Statistics for multiple alignment files
pepcoil | Predict coiled coil regions in protein sequences
rocon | Generate a hits file from comparing two DHF files
rocplot | Perform ROC analysis on hits files
scopparse | Generate DCF file from raw SCOP files
seqfraggle | Remove fragment sequences from DHF files
seqmatchall | All-against-all word comparison of a sequence set
seqsort | Remove ambiguous classified sequences from DHF files
seqwords | Generate DHF files from keyword search of UniProt
ssematch | Search a DCF file for secondary structure matches
supermatcher | Calculate approximate local pair-wise alignments of larger sequences
water | Smith-Waterman local alignment of sequences
wordfinder | Match large sequences against one or more other sequences
wordmatch | Find regions of identity (exact matches) of two sequences

## 12.0 DIAGNOSTIC ERROR MESSAGES

The log file might contain the following messages:
Could not open seed sequence file my.file (file read error on input sequence alignment or sequence file)
Empty alignment in my.file (input alignment was empty.)
Empty singlet sequence for my.file (singlet sequence file was empty.)
Could not open domain hits file my.file (file read error on input sequence file.)
Not enough sequences found in domain hits file (insufficient sequences (i.e. < 2) in input sequence file.)

## 13.0 AUTHORS

Ranjeeva Ranasinghe
Jon Ison (jison@ebi.ac.uk)
The European Bioinformatics Institute Wellcome Trust Genome Campus Cambridge CB10 1SD UK

## 14.0 REFERENCES

Please cite the authors and EMBOSS.
Rice P, Longden I and Bleasby A (2000) "EMBOSS - The European Molecular Biology Open Software Suite" Trends in Genetics, 15:276-278.

See also http://emboss.sourceforge.net/

### 14.1 Other useful references