CLUSTAL Alignment (several examples)

1

Starting code

This is the PHP code used by this example.

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/**
  * Here is some samples of how to use the functions
  * @param SequenceAlignmentInterface $sequenceAlignmentManager
  * @return Response
  * @throws \Exception
  */
public function clustalseqalignment(SequenceAlignmentInterface $sequenceAlignmentManager)
{
    set_time_limit(0); // we never know ...
    $sequenceAlignmentManager->setFilename("data/clustal.txt");
    $sequenceAlignmentManager->setFormat("CLUSTAL");
    $sequenceAlignmentManager->parseFile();
 
    // You wanna sort your array ? :)
    $sequenceAlignmentManager->sortAlpha("ASC");
    $sequenceAlSort = $sequenceAlignmentManager->getSeqSet();
    // You wanna fetch something ?
    $oOffset13 = $sequenceAlignmentManager->getSeqSet()->offsetGet(13);
    // You wanna know the longest sequence ?
    $iMaxLength = $sequenceAlignmentManager->getMaxiLength();
    // You wanna know the number of gaps ?
    $iNumberGaps = $sequenceAlignmentManager->getGapCount();
    // Have the same length ?
    $bIsFlush = $sequenceAlignmentManager->getIsFlush();
    // Char at res 10 (10th sequence)
    $sCharAtRes = $sequenceAlignmentManager->charAtRes(10, 10);
    // Substring between two residues in a sequence
    $sSubstrBwRes = $sequenceAlignmentManager->substrBwRes(10,10);
    // Converts a column number to a residue number in a sequence
    $iColToRes = $sequenceAlignmentManager->colToRes(10, 50);
    // Converts a residue number to a column number in a sequence
    $iResToCol = $sequenceAlignmentManager->resToCol(10, 47);
    // Creates a new alignment set from index 5 to 10
    $sequenceAlignmentManager->subalign(5, 10);
    $oSubALign = $sequenceAlignmentManager;
    // Creates a new alignment with selected indexes
    $sequenceAlignmentManager->select(1,2,3);
    $oSelectAlign = $sequenceAlignmentManager;
 
    // Determines the index position of both variant and invariant residues according
    // to a given "percentage threshold" similar to that in the consensus() method.
    $aResVar = $sequenceAlignmentManager->resVar();
 
    // Returns the consensus string for an alignment set
    $aConsensus = $sequenceAlignmentManager->consensus();
 
    // Adding a new sequence object
    $sequenceAlignmentManager->addSequence($oOffset13);
    $sequenceAlignmentManagerAdd = $sequenceAlignmentManager;
    // Dropping a sequence
    $sequenceAlignmentManager->deleteSequence("sp|P04637|P53_HUMAN");
    $sequenceAlignmentManagerDel = $sequenceAlignmentManager;
 
 
    return $this->render('default/clustalseqalignment.html.twig',
        [
            'sequenceAlSort'              => $sequenceAlSort,
            'offset13'                    => $oOffset13,
            'maxLength'                   => $iMaxLength,
            'numberGaps'                  => $iNumberGaps,
            'isFlush'                     => $bIsFlush,
            'sCharAtRes'                  => $sCharAtRes,
            'sSubstrBwRes'                => $sSubstrBwRes,
            'colToRes'                    => $iColToRes,
            'resToCol'                    => $iResToCol,
            'subALign'                    => $oSubALign,
            'selectAlign'                 => $oSelectAlign,
            'resVar'                      => $aResVar,
            'consensus'                   => $aConsensus,
            'sequenceAlignmentManagerAdd' => $sequenceAlignmentManagerAdd,
            'sequenceAlignmentManagerDel' => $sequenceAlignmentManagerDel
        ]
    );
}
2

Result

Result returned by BioPHP for the demonstration data.

Sort sequences :
Primary accession Entry name Length Mol type Sequence
sp|O09185|P53_CRIGR 426 
MEEPQSDLSIEL-PLSQETFSDLWKLLPPNNVLSTLPS-SDSIEE-LFLSENVTGWLEDSGGALQGVAAAA---ASTAEDPVTET-------PAPVASAPATPWPLSSSVPSYKTYQGDYGFRLGFLHSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVNSTPPPGTRVRAMAIYKKLQYMTEVVRRCPHHERSSE-GDSLAPPQHLIRVEGNLHAEYLDDKQTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDPSGNLLGRNSFEVRICACPGRDRRTEEKNFQKKGEPCPELP---PKSAKRALPT--NTS--SSPP-PK-----KKTLDGEYFTLKIRGHERFKMFQELNEALELKDAQASKGSEDNGAHSSYL-----KSKKGQSASRLKKLMIKREGPDSD-
sp|O12946|P53_PLAFE 426 
MMDEQGLDGMQILPGSQDSFSELWASVQTPSIATI---------AEEF-------------DD---H---LGNLLQNGFDMNLFE-------LPPEMVAKDSVTPPSSTVPVVTDYPGEYGFQLRFQKSGTAKSVTSTFSELLKKLYCQLAKTSPVEVLLSKEPPQGAVLRATAVYKKTEHVADVVRRCPHHQT----EDTAEHRSHLIRLEGSQRALYFEDPHTKRQSVTVPYEPPQLGSETTAILLSFMCNSSCMGGMNRRQILTILTLETPDGLVLGRRCFEVRVCACPGRDRKTDEESSTKTPNGPKQTK-------KRKQAPSNSAPHTT-TVMKSKSSSSAEEEDKEVFTVLVKGRERYEIIKKINEAFEGAAEKEKAKN------------KVAVKQELPVPSSGKRLVQRGERSDSD-
sp|O36006|P53_MARMO 426 
MEEAQSDLSIEP-PLSQETFSDLWNLLPENNVLSPVLS-PPM-DDLLLSSEDVENWFDK--GPDEAL---QMSAAPAPKAPTPAA-------STLAAPSPATSWPLSSSVPSQNTYPGVYGFRLGFLHSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKKSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSECTTIHYNYMCNSSCMGGMNRRPILTIITLEGSSGNLLGRNSFEVRVCACPGRDRRTEEENFRKRGEPCPEPP---PRSTKRALPN--GTS--SSPQ-PK-----KKPLDGEYFTLKIRGRARFEMFQELNEALELKDAQAEKEPGESRPHPSYL-----KSKKGQSTSRHKKIIFKREGPDSD-
sp|O57538|P53_XIPHE 426 
-ME----EADLTLPLSQDTFHDLWNNVFLSTEN--------------------ESLAPPE--G---L---LSQ------NMDFWE--------DPETMQETKNVPTAPTVPAISNYAGEHGFNLEFNDSGTAKSVTSTYSVKLGKLFCQLAKTTPIGVLVKEEPPQGAVIRATSVYKKTEHVGEVVKRCPHHQS----EDLSDNKSHLIRVEGSQLAQYFEDPNTRRHSVTVPYERPQLGSEMTTILLSFMCNSSCMGGMNRRPILTILTLETTEGEVLGRRCFEVRVCACPGRDRKTEEGNLEK--SGTKQTK-------KRKSAP---APDTS-TAKKSKSASSGEDEDKEIYTLSIRGRNRYLWFKSLNDGLELMDKTG-----------------PKIKQEIPAPSSGKRLLKGGSDSD---
sp|O93379|P53_ICTPU 426 
MEGNGERDTMMVEPPDSQEFAELWLRN--------------------LIVRDNSLWGKEEEIPDDLQ---E---VPCD-----VL-------LSDMLQPQSSSSPPTSTVPVTSDYPGLLNFTLHFQESSGTKSVTCTYSPDLNKLFCQLAKTCPVLMAVSSSPPPGSVLRATAVYKRSEHVAEVVRRCPHHERSNDSSDGPAPPGHLLRVEGNSRAVYQEDGNTQAHSVVVPYEPPQVGSQSTTVLYNYMCNSSCMGGMNRRPILTIITLETQDGHLLGRRTFEVRVCACPGRDRKTEESNFKKQQEPKTSGK---T-LTKRSMKD--PPSHPEASKKSK-----NSSSDDEIYTLQVRGKERYEFLKKINDGLELSDVVPPADQEKYRQKLLSKTCRKERDGAAGEPKRGKKRLVKEEKCDSD-
sp|P02340|P53_MOUSE 426 
MEESQSDISLEL-PLSQETFSGLWKLLPPEDILPS-----PHCMDDLLLPQDVEEFFEG---PSEAL---RVSGAPAAQDPVTET-------PGPVAPAPATPWPLSSFVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSPPLNKLFCQLAKTCPVQLWVSATPPAGSRVRAMAIYKKSQHMTEVVRRCPHHERCSD-GDGLAPPQHLIRVEGNLYPEYLEDRQTFRHSVVVPYEPPEAGSEYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEVLCPELP---PGSAKRALPT--CTS--ASPP-QK-----KKPLDGEYFTLKIRGRKRFEMFRELNEALELKDAHATEESGDSRAHSSYL-----KTKKGQSTSRHKKTMVKKVGPDSD-
sp|P04637|P53_HUMAN 426 
MEEPQSDPSVEP-PLSQETFSDLWKLLPENNVLSPLPS-QA-MDDLMLSPDDIEQWFTEDPGPDEAP---RMPEAAPPVAPAPAA-------PTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGEPHHELP---PGSTKRALPN--NTS--SSPQ-PK-----KKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHL-----KSKKGQSTSRHKKLMFKTEGPDSD-
sp|P07193|P53_XENLA 426 
-MEPSSETGMDP-PLSQETFEDLWSLLPDPLQTVTCR------------LDNLSEFPDY------PL-AADMT-----------V-------LQEGLMGNAVPTVTSCAVPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSG--------KRELAH--PPS--SEPPLPK-KRLVVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQK--------VTIKCR--KCRDEIKPKKGKKLLVKDEQPDSE-
sp|P10360|P53_CHICK 426 
MAE-----EMEPLLEPTEVFMDLWSMLPY-------------SMQQLPLPEDHSNWQELSPLEPSDP---PPPPPPPPLPLAAAA-------PPPLNPPTPPRAAPSPVVPSTEDYGGDFDFRVGFVEAGTAKSVTCTYSPVLNKVYCRLAKPCPVQVRVGVAPPPGSSLRAVAVYKKSEHVAEVVRRCPHHERCGGGTDGLAPAQHLIRVEGNPQARYHDDETTKRHSVVVPYEPPEVGSDCTTVLYNFMCNSSCMGGMNRRPILTILTLEGPGGQLLGRRCFEVRVCACPGRDRKIEEENFRKRGGAG--------GVAKRAMSP--PTEA-PEPPKKR-----VLNPDNEIFYLQVRGRRRYEMLKEINEALQLAEGGSAPRPSKGRR----------VKVEGPQPSCGKKLLQKGSD-----
sp|P10361|P53_RAT 426 
MEDSQSDMSIEL-PLSQETFSCLWKLLPPDDILPTTATGSPNSMEDLFLPQDVAELLEG---PEEAL---QVS-APAAQEPGTEA-------PAPVAPASATPWPLSSSVPSQKTYQGNYGFHLGFLQSGTAKSVMCTYSISLNKLFCQLAKTCPVQLWVTSTPPPGTRVRAMAIYKKSQHMTEVVRRCPHHERCSD-GDGLAPPQHLIRVEGNPYAEYLDDRQTFRHSVVVPYEPPEVGSDYTTIHYKYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGRDRRTEEENFRKKEEHCPELP---PGSAKRALPT--STS--SSPQ-QK-----KKPLDGEYFTLKIRGRERFEMFRELNEALELKDARAAEESGDSRAHSSYP-----KTKKGQSTSRHKKPMIKKVGPDSD-
sp|P13481|P53_CHLAE 426 
MEEPQSDPSIEP-PLSQETFSDLWKLLPENNVLSPLPS-QA-VDDLMLSPDDLAQWLTEDPGPDEAP---RMSEAAPHMAPTPAA-------PTPAAPAPAPSWPLSSSVPSQKTYHGSYGFRLGFLHSGTAKSVTCTYSPDLNKMFCQLAKTCPVQLWVDSTPPPGSRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYSDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENFRKKGEPCHELP---PGSTKRALPN--NTS--SSPQ-PK-----KKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPAGSRAHSSHL-----KSKKGQSTSRHKKFMFKTEGPDSD-
sp|P25035|P53_ONCMY 426 
MADLAEN---VSLPLSQESFEDLWKMNLNLVAV---------------QPPETESWVGYDNFMMEAP-------LQVEFDPSLFEVSATEPAPQPSISTLDTGSPPTSTVPTTSDYPGALGFQLRFLQSSTAKSVTCTYSPDLNKLFCQLAKTCPVQIVVDHPPPPGAVVRALAIYKKLSDVADVVRRCPHHQSTSENNEGPAPRGHLVRVEGNQRSEYMEDGNTLRHSVLVPYEPPQVGSECTTVLYNFMCNSSCMGGMNRRPILTIITLETQEGQLLGRRSFEVRVCACPGRDRKTEEINLKKQQETTLETKTKPAQGIKRAMKE-ASLPA-PQPGASKKTKSSPAVSDDEIYTLQIRGKEKYEMLKKFNDSLELSELVPVADADKYRQKCLTKRVA--KRDFGVGPKKRKKLLVKEEKSDSD-
sp|P41685|P53_FELCA 426 
MQEPPLELTIEP-PLSQETFSELWNLLPENNVLSSELS-SAM--NELPLSEDVANWLDE--APDDAS---GMSAVPAPAAPAP------------ATPAPAISWPLSSFVPSQKTYPGAYGFHLGFLQSGTAKSVTCTYSPPLNKLFCQLAKTCPVQLWVRSPPPPGTCVRAMAIYKKSEFMTEVVRRCPHHERCPDSSDGLAPPQHLIRVEGNLHAKYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPIITIITLEDSNGKLLGRNSFEVRVCACPGRDRRTEEENFRKKGEPCPEPP---PGSTKRALPP--STS--STPP-QK-----KKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQSGKEPGGSRAHSSHL-----KAKKGQSTSRHKKPMLKREGLDSD-
sp|P51664|P53_SHEEP 426 
MEESQAELGVEP-PLSQETFSDLWNLLPENNLLSSELS-AP-VDDLLPYSEDVVTWLDE--CPNEAP---QMPEPPAQA-----------------ALAPATSWPLSSFVPSQKTYPGNYGFRLGFLHSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRSPHHERSSDYSDGLAPPQHLIRVEGNLRAEYFDDRNTFRHSVVVPYESPEIESECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSRGNLLGRSSFEVRVCACPGRDRRTEEENFRKKGQSCPEPP---PGSTKRALPS--STS--SSPQ-QK-----KKPLDGEYFTLQIRGRKRFEMFRELNEALELMDAQAGREPGESRAHSSHL-----KSKKGPSPSCHKKPMLKREGPDSD-
sp|P56423|P53_MACFA 426 
MEEPQSDPSIEP-PLSQETFSDLWKLLPENNVLSPLPS-QA-VDDLMLSPDDLAQWLTEDPGPDEAP---RMSEAAPPMAPTPAA-------PTPAAPAPAPSWPLSSSVPSQKTYHGSYGFRLGFLHSGTAKSVTCTYSPDLNKMFCQLAKTCPVQLWVDSTPPPGSRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYSDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENFRKKGEPCHQLP---PGSTKRALPN--NTS--SSPQ-PK-----KKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPAGSRAHSSHL-----KSKKGQSTSRHKKFMFKTEGPDSD-
sp|P56424|P53_MACMU 426 
MEEPQSDPSIEP-PLSQETFSDLWKLLPENNVLSPLPS-QA-VDDLMLSPDDLAQWLTEDPGPDEAP---RMSEAAPPMAPTPAA-------PTPAAPAPAPSWPLSSSVPSQKTYHGSYGFRLGFLHSGTAKSVTCTYSPDLNKMFCQLAKTCPVQLWVDSTPPPGSRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYSDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENFRKKGEPCHQLP---PGSTKRALPN--NTS--SSPQ-PK-----KKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPAGSRAHSSHL-----KSKKGQSTSRHKKFMFKTEGPDSD-
sp|P61260|P53_MACFU 426 
MEEPQSDPSIEP-PLSQETFSDLWKLLPENNVLSPLPS-QA-VDDLMLSPDDLAQWLTEDPGPDEAP---RMSEAAPPMAPTPAA-------PTPAAPAPAPSWPLSSSVPSQKTYHGSYGFRLGFLHSGTAKSVTCTYSPDLNKMFCQLAKTCPVQLWVDSTPPPGSRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYSDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENFRKKGEPCHQLP---PGSTKRALPN--NTS--SSPQ-PK-----KKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPAGSRAHSSHL-----KSKKGQSTSRHKKFMFKTEGPDSD-
sp|P67938|P53_BOSIN 426 
MEESQAELNVEP-PLSQETFSDLWNLLPENNLLSSELS-AP-VDDLLPYT-DVATWLDE--CPNEAP---QMPEPSAPAAPPP------------ATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPP---PRSTKRALPT--NTS--SSPQ-PK-----KKPLDGEYFTLQIRGFKRYEMFRELNDALELKDALDGREPGESRAHSSHL-----KSKKRPSPSCHKKPMLKREGPDSD-
sp|P67939|P53_BOVIN 426 
MEESQAELNVEP-PLSQETFSDLWNLLPENNLLSSELS-AP-VDDLLPYT-DVATWLDE--CPNEAP---QMPEPSAPAAPPP------------ATPAPATSWPLSSFVPSQKTYPGNYGFRLGFLQSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYESPEIDSECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSCGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGQSCPEPP---PRSTKRALPT--NTS--SSPQ-PK-----KKPLDGEYFTLQIRGFKRYEMFRELNDALELKDALDGREPGESRAHSSHL-----KSKKRPSPSCHKKPMLKREGPDSD-
sp|P79734|P53_DANRE 426 
-----------MAQNDSQEFAELWEKNL----IIQPP-------------GGGSCWDIIN---DEEY-------LPGSFDPNFFE-------NVLEEQPQPSTLPPTSTVPETSDYPGDHGFRLRFPQSGTAKSVTCTYSPDLNKLFCQLAKTCPVQMVVDVAPPQGSVVRATAIYKKSEHVAEVVRRCPHHERTPD-GDNLAPAGHLIRVEGNQRANYREDNITLRHSVFVPYEAPQLGAEWTTVLLNYMCNSSCMGGMNRRPILTIITLETQEGQLLGRRSFEVRVCACPGRDRKTEESNFKKDQETKTMAKT--TTGTKRSLVK-ESSSATLRPEGSK-KAKG-SSSDEEIFTLQVRGRERYEILKKLNDSLELSDVVPASDAEKYRQKFMTK--NKKENRESSEPKQGKKLMVKDEGRSDSD
sp|P79820|P53_ORYLA 426 
------MDPVPDLPESQGSFQELWETVSYPPLETL---------SLPTVNEPTGSWVATGDMF---L---LDQDLSGTFDDKIFD-------IPIEPVPTNEVNPPPTTVPVTTDYPGSYELELRFQKSGTAKSVTSTYSETLNKLYCQLAKTSPIEVRVSKEPPKGAILRATAVYKKTEHVADVVRRCPHHQN----EDSVEHRSHLIRVEGSQLAQYFEDPYTKRQSVTVPYEPPQPGSEMTTILLSYMCNSSCMGGMNRRPILTILTLET-EGLVLGRRCFEVRICACPGRDRKTEEESRQKTQP-----K-------KRKVTPNTS----S-SKRKKSHSSGEEEDNREVFHFEVYGRERYEFLKKINDGLELLEKESKSKN----------------KDSGMVPSSGKKLKSN--------
sp|P79892|P53_HORSE 426 
---------------------------------------PAV-NN-LLLSPDVVNWLDE--GPDEAP---RMPAAPA-----P------------LAPAPATSWPLSSFVPSQKTYPGCYGFRLGFLNSGTAKSVTCTYSPTLNKLFCQLAKTCPVQLLVSSPPPPGTRVRAMAIYKKSEFMTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENFRKKEEPCPEPP---PRSTKRVLSS--NTS--SSPP-QK-----KKPLDGEYFT----------------------------------------------------------------------
sp|Q00366|P53_MESAU 426 
MEEPQSDLSIEL-PLSQETFSDLWKLLPPNNVLSTLPS-SDSIEE-LFLSENVAGWLEDPGEALQGSAAAAAPAAPAAEDPVAET-------PAPVASAPATPWPLSSSVPSYKTYQGDYGFRLGFLHSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVSSTPPPGTRVRAMAIYKKLQYMTEVVRRCPHHERSSE-GDGLAPPQHLIRVEGNMHAEYLDDKQTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDPSGNLLGRNSFEVRICACPGRDRRTEEKNFQKKGEPCPELP---PKSAKRALPT--NTS--SSPQ-PK-----RKTLDGEYFTLKIRGQERFKMFQELNEALELKDAQALKASEDSGAHSSYL-----KSKKGQSASRLKKLMIKREGPDSD-
sp|Q29480|P53_EQUAS 426 
------------------------------------------------------------------------------------------------------------------------------------------YSPALNKMFCQLAKTCPVYLRISSPPPPGTRVRAMAIYKKSEFMTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAEYLDDRNTLRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENFRKKEEPCPEPP---PRSTKRVLSS--NTS--SSPP-QK-----EDPLDGEYFTLH--------------------------------------------------------------------
sp|Q29537|P53_CANFA 426 
MEESQSELNIDP-PLSQETFSELWNLLPENNVLSSELC-PAV-DE-LLLPESVVNWLDE--DSDDAP---RMPATSA-----P------------TAPGPAPSWPLSSSVPSPKTYPGTYGFRLGFLHSGTAKSVTWTYSPLLNKLFCQLAKTCPVQLWVSSPPPPNTCVRAMAIYKKSEFVTEVVRRCPHHERCSDSSDGLAPPQHLIRVEGNLRAKYLDDRNTFRHSVVVPYEPPEVGSDYTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNVLGRNSFEVRVCACPGRDRRTEEENFHKKGEPCPEPP---PGSTKRALPP--STS--SSPP-QK-----KKPLDGEYFTLQIRGRERYEMFRNLNEALELKDAQSGKEPGGSRAHSSHL-----KAKKGQSTSRHKKLMFKREGLDSD-
sp|Q64662|P53_SPEBE 426 
---------------------DLWNLLPENNVLSPVLS-PPM-DDLLLSSEDVENWFDK--GPDEAL---QMSAAPAPKAPTPAA-------STLAAPTPAISWPLSSSVPSQNTYPGVYGFRLGFIHSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKKSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSESTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENFRKRGEPCPEPP---PGSTKRALPT--GTN--SSPQ-PK-----KKPLDGEYFTLKIRGRA---------------------------------------------------------------
sp|Q8SPZ3|P53_DELLE 426 
MEESQAELGVEP-PLSQETFSDLWKLLPENNLLSSELS-PA-VDDLLLSPEDVANWLDE--RPDEAP---QMPEPPAPAAPTP------------AAPAPATSWPLSSFVPSQKTYPGSYGFHLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERCSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDSNGNLLGRNSFEVRVCACPGRDRRTEEENFHKKGQSCPELP---TGSAKRALPT--GTS--SSPP-QK-----KKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGESRAHSSHL-----KSKKGQSPSRHKKLMFKREGPDSD-
sp|Q92143|P53_XIPMA 426 
-ME----EADLTLPLSQDTFHDLWNNVFLSTEN--------------------ESLPPPE--G---L---LSQ------NMDFWE--------DPETMQETKNVPTAPTVPAISNYAGEHGFNLEFNDSGTAKSVTSTYSVKLGKLFCQLAKTTPIGVLVKEEPPQGAVIRATAVYKKTEHVGEVVKRCPHHQS----EDLSDNKSHLIRVEGSQLAQYFEDPNTRRHSVTVPYERPQLGSEMTTILLSFMCNSSCMGGMNRRPILTILTLETTEGEVLGRRCFEVRVCACPGRDRKTEEGNLEK--SGTKQTK-------KRKSAP---APDTS-TAKKSKSASSGEDEDKEIYTLSIRGRNRYLWFKSLNDGLELMDKTG-----------------PKIKQEIPAPSSGKRLLKGGSDSD---
sp|Q95330|P53_RABIT 426 
MEESQSDLSLEP-PLSQETFSDLWKLLPENNLLTTSLN-PPV--DDLLSAEDVANWLNE--DPEEGL---RVPAAPAPEAPAPAA-------PALAAPAPATSWPLSSSVPSQKTYHGNYGFRLGFLHSGTAKSVTCTYSPCLNKLFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKKSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENFRKKGEPCPELP---PGSSKRALPT--TTTD-SSPQ-TK-----KKPLDGEYFILKIRGRERFEMFRELNEALELKDAQAEKEPGGSRAHSSYL-----KAKKGQSTSRHKKPMFKREGPDSD-
sp|Q9TTA1|P53_TUPBE 426 
MEEPQSDPSVEP-PLSQETFSDLWKLLPENNVLSPLPS-QA-MDDLMLSPDDIEQWFTEDPGPDEAP---RMPEAAPPVAPAPAA-------PTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPDLNKLFCQLAKTCPVQLWVDSAPPPGTRVRAMAIYKQSQYVTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLHAEYSDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGKLLGRNSFEVRICACPGRDRRTEEENFRKKGESCPKLP---TGSIKRALPT--GSS--SSPQ-PK-----KKPLDEEYFTLQIRGRERFEMLREINEALELKDAMAGKESAGSRAHSSHL-----KSKKGQSTSRHRKLMFKTEGPDSD-
sp|Q9TUB2|P53_PIG 426 
MEESQSELGVEP-PLSQETFSDLWKLLPENNLLSSELS-LAAVNDLLLSP--VTNWLDE--NPDDAS---RVPAPPAATAPAP------------AAPAPATSWPLSSFVPSQKTYPGSYDFRLGFLHSGTAKSVTCTYSPALNKLFCQLAKTCPVQLWVSSPPPPGTRVRAMAIYKKSEYMTEVVRRCPHHERSSDYSDGLAPPQHLIRVEGNLRAEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNFMCNSSCMGGMNRRPILTIITLEDASGNLLGRNSFEVRVCACPGRDRRTEEENFLKKGQSCPEPP---PGSTKRALPT--STS--SSPV-QK-----KKPLDGEYFTLQIRGRERFEMFRELNDALELKDAQTARESGENRAHSSHL-----KSKKGQSPSRHKKPMFKREGPDSD-
sp|Q9W678|P53_BARBU 426 
-------------MAESQEFAELWERNL----IST-Q-------------EAGTCWELIN---D-EY-------LPSSFDPNIFD-------NVLTEQPQPSTSPPTASVPVATDYPGEHGFKLGFPQSGTAKSVTCTYSSDLNKLFCQLAKTCPVQMVVNVAPPQGSVIRATAIYKKSEHVAEVVRRCPHHERTPD-GDGLAPAAHLIRVEGNSRALYREDDVNSRHSVVVPYEVPQLGSEFTTVLYNFMCNSSCMGGMNRRPILTIISLETHDGQLLGRRSFEVRVCACPGRDRKTEESNFRKDQETKTLDKI--PSANKRSLTK-DSTSSVPRPEGSK-KAKLSGSSDEEIYTLQVRGKERYEMLKKINDSLELSDVVPPSEMDRYRQKLLTK--GKKKDGQTPEPKRGKKLMVKDEKSDSD-
sp|Q9W679|P53_TETMU 426 
-ME----EENISLPLSQDTFQDLWDNVSAPPISTI---------QTAAL--ENEAWPAERQMN---M---MCNFMDSTFNEALFN-------LLPEPPSRDGANSSSPTVPVTTDYPGEYGFKLRFQKSGTAKSVTSTYSEILNKLYCQLAKTSLVEVLLGKDPPMGAVLRATAIYKKTEHVAEVVRRCPHHQN----EDSAEHRSHLIRMEGSERAQYFEHPHTKRQSVTVPYEPPQLGSEFTTILLSFMCNSSCMGGMNRRPILTILTLETQEGIVLGRRCFEVRVCACPGRDRKTEETNSTKMQNDAKDAK-------KRKSVP---TPDST-TIKKSKTASSAEEDNNEVYTLQIRGRKRYEMLKKINDGLDLLENKP--KS------------KATHRPDGPIPPSGKRLLHRGEKSDSD-
sp|Q9WUR6|P53_CAVPO 426 
MEEPHSDLSIEP-PLSQETFSDLWKLLPENNVLSDSLS-PPM-DHLLLSPEEVASWLGENP--DGDG---HVSAAPVSEAPTSAG-------PALVAPAPATSWPLSSSVPSHKPYRGSYGFEVHFLKSGTAKSVTCTYSPGLNKLFCQLAKTCPVQVWVESPPPPGTRVRALAIYKKSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLHAEYVDDRTTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGKLLGRDSFEVRVCACPGRDRRTEEENFRKKGGLCPEPT---PGNIKRALPT--STS--SSPQ-PK-----KKPLDAEYFTLKIRGRKNFEILREINEALEFKDAQTEKEPGESRPHSSYP-----KSKKGQSTSCHKKLMFKREGLDSD-
13th sequence
Primary accessionsp|P51664|P53_SHEEP
Entry name
Length426
Start / End0 / 425
Molecule type
Date
Source
Description
Organism(none)
Fragment
Sequence 
MEESQAELGVEP-PLSQETFSDLWNLLPENNLLSSELS-AP-VDDLLPYSEDVVTWLDE--CPNEAP---QMPEPPAQA-----------------ALAPATSWPLSSFVPSQKTYPGNYGFRLGFLHSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRSPHHERSSDYSDGLAPPQHLIRVEGNLRAEYFDDRNTFRHSVVVPYESPEIESECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSRGNLLGRSSFEVRVCACPGRDRRTEEENFRKKGQSCPEPP---PGSTKRALPS--STS--SSPQ-QK-----KKPLDGEYFTLQIRGRKRFEMFRELNEALELMDAQAGREPGESRAHSSHL-----KSKKGPSPSCHKKPMLKREGPDSD-
Length of the longuest sequence
426
Number of gaps
1878
Do the sequences have the same length ?
Yes
Char at res 10 (10th sequence)
E
Substring between two residues in a sequence
EP-PLSQETFSDLWKLLPENNVLSPLPS-QA-VDDLMLSPDDLAQWLTEDPGPDEAP---RMSEAAPHMAPTPAA-------PTPAAPAPAPSWPLSSSVPSQKTYHGSYGFRLGFLHSGTAKSVTCTYSPDLNKMFCQLAKTCPVQLWVDSTPPPGSRVRAMAIYKQSQHMTEVVRRCPHHERCSD-SDGLAPPQHLIRVEGNLRVEYSDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENFRKKGEPCHELP---PGSTKRALPN--NTS--SSPQ-PK-----KKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPAGSRAHSSHL-----KSKKGQSTSRHKKFMFKTEGPDSD-
Converts a column number to a residue number in a sequence
47
Converts a residue number to a column number in a sequence
50
Creates a new alignment set from index 5 to 10
Primary accession Entry name Length Mol type Sequence
sp|P07193|P53_XENLA 426 
-MEPSSETGMDP-PLSQETFEDLWSLLPDPLQTVTCR------------LDNLSEFPDY------PL-AADMT-----------V-------LQEGLMGNAVPTVTSCAVPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSG--------KRELAH--PPS--SEPPLPK-KRLVVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQK--------VTIKCR--KCRDEIKPKKGKKLLVKDEQPDSE-
sp|P10360|P53_CHICK 426 
MAE-----EMEPLLEPTEVFMDLWSMLPY-------------SMQQLPLPEDHSNWQELSPLEPSDP---PPPPPPPPLPLAAAA-------PPPLNPPTPPRAAPSPVVPSTEDYGGDFDFRVGFVEAGTAKSVTCTYSPVLNKVYCRLAKPCPVQVRVGVAPPPGSSLRAVAVYKKSEHVAEVVRRCPHHERCGGGTDGLAPAQHLIRVEGNPQARYHDDETTKRHSVVVPYEPPEVGSDCTTVLYNFMCNSSCMGGMNRRPILTILTLEGPGGQLLGRRCFEVRVCACPGRDRKIEEENFRKRGGAG--------GVAKRAMSP--PTEA-PEPPKKR-----VLNPDNEIFYLQVRGRRRYEMLKEINEALQLAEGGSAPRPSKGRR----------VKVEGPQPSCGKKLLQKGSD-----
sp|P51664|P53_SHEEP 426 
MEESQAELGVEP-PLSQETFSDLWNLLPENNLLSSELS-AP-VDDLLPYSEDVVTWLDE--CPNEAP---QMPEPPAQA-----------------ALAPATSWPLSSFVPSQKTYPGNYGFRLGFLHSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRSPHHERSSDYSDGLAPPQHLIRVEGNLRAEYFDDRNTFRHSVVVPYESPEIESECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSRGNLLGRSSFEVRVCACPGRDRRTEEENFRKKGQSCPEPP---PGSTKRALPS--STS--SSPQ-QK-----KKPLDGEYFTLQIRGRKRFEMFRELNEALELMDAQAGREPGESRAHSSHL-----KSKKGPSPSCHKKPMLKREGPDSD-
Creates a new alignment with selected indexes
Primary accession Entry name Length Mol type Sequence
sp|P07193|P53_XENLA 426 
-MEPSSETGMDP-PLSQETFEDLWSLLPDPLQTVTCR------------LDNLSEFPDY------PL-AADMT-----------V-------LQEGLMGNAVPTVTSCAVPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSG--------KRELAH--PPS--SEPPLPK-KRLVVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQK--------VTIKCR--KCRDEIKPKKGKKLLVKDEQPDSE-
sp|P10360|P53_CHICK 426 
MAE-----EMEPLLEPTEVFMDLWSMLPY-------------SMQQLPLPEDHSNWQELSPLEPSDP---PPPPPPPPLPLAAAA-------PPPLNPPTPPRAAPSPVVPSTEDYGGDFDFRVGFVEAGTAKSVTCTYSPVLNKVYCRLAKPCPVQVRVGVAPPPGSSLRAVAVYKKSEHVAEVVRRCPHHERCGGGTDGLAPAQHLIRVEGNPQARYHDDETTKRHSVVVPYEPPEVGSDCTTVLYNFMCNSSCMGGMNRRPILTILTLEGPGGQLLGRRCFEVRVCACPGRDRKIEEENFRKRGGAG--------GVAKRAMSP--PTEA-PEPPKKR-----VLNPDNEIFYLQVRGRRRYEMLKEINEALQLAEGGSAPRPSKGRR----------VKVEGPQPSCGKKLLQKGSD-----
sp|P51664|P53_SHEEP 426 
MEESQAELGVEP-PLSQETFSDLWNLLPENNLLSSELS-AP-VDDLLPYSEDVVTWLDE--CPNEAP---QMPEPPAQA-----------------ALAPATSWPLSSFVPSQKTYPGNYGFRLGFLHSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRSPHHERSSDYSDGLAPPQHLIRVEGNLRAEYFDDRNTFRHSVVVPYESPEIESECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSRGNLLGRSSFEVRVCACPGRDRRTEEENFRKKGQSCPEPP---PGSTKRALPS--STS--SSPQ-QK-----KKPLDGEYFTLQIRGRKRFEMFRELNEALELMDAQAGREPGESRAHSSHL-----KSKKGPSPSCHKKPMLKREGPDSD-
Determines the index position of both variant and invariant residues according to a given "percentage threshold" similar to that in the consensus() method.
  • INVARIANT :
    • 0 : 2
    • 1 : 11
    • 2 : 17
    • 3 : 19
    • 4 : 21
    • 5 : 22
    • 6 : 23
    • 7 : 26
    • 8 : 27
    • 9 : 106
    • 10 : 109
    • 11 : 110
    • 12 : 111
    • 13 : 115
    • 14 : 117
    • 15 : 125
    • 16 : 129
    • 17 : 130
    • 18 : 131
    • 19 : 132
    • 20 : 133
    • 21 : 134
    • 22 : 135
    • 23 : 136
    • 24 : 137
    • 25 : 138
    • 26 : 139
    • 27 : 140
    • 28 : 142
    • 29 : 143
    • 30 : 144
    • 31 : 147
    • 32 : 149
    • 33 : 150
    • 34 : 151
    • 35 : 153
    • 36 : 154
    • 37 : 159
    • 38 : 163
    • 39 : 164
    • 40 : 166
    • 41 : 170
    • 42 : 171
    • 43 : 173
    • 44 : 175
    • 45 : 176
    • 46 : 178
    • 47 : 180
    • 48 : 183
    • 49 : 184
    • 50 : 185
    • 51 : 187
    • 52 : 188
    • 53 : 189
    • 54 : 190
    • 55 : 191
    • 56 : 192
    • 57 : 193
    • 58 : 202
    • 59 : 203
    • 60 : 206
    • 61 : 207
    • 62 : 209
    • 63 : 210
    • 64 : 211
    • 65 : 212
    • 66 : 213
    • 67 : 218
    • 68 : 221
    • 69 : 226
    • 70 : 227
    • 71 : 228
    • 72 : 229
    • 73 : 231
    • 74 : 232
    • 75 : 233
    • 76 : 234
    • 77 : 236
    • 78 : 238
    • 79 : 239
    • 80 : 242
    • 81 : 243
    • 82 : 244
    • 83 : 247
    • 84 : 248
    • 85 : 250
    • 86 : 251
    • 87 : 252
    • 88 : 253
    • 89 : 254
    • 90 : 255
    • 91 : 256
    • 92 : 257
    • 93 : 258
    • 94 : 259
    • 95 : 260
    • 96 : 261
    • 97 : 262
    • 98 : 263
    • 99 : 264
    • 100 : 265
    • 101 : 266
    • 102 : 267
    • 103 : 269
    • 104 : 270
    • 105 : 271
    • 106 : 275
    • 107 : 277
    • 108 : 278
    • 109 : 279
    • 110 : 280
    • 111 : 283
    • 112 : 284
    • 113 : 285
    • 114 : 286
    • 115 : 287
    • 116 : 288
    • 117 : 289
    • 118 : 290
    • 119 : 291
    • 120 : 292
    • 121 : 293
    • 122 : 294
    • 123 : 295
    • 124 : 298
    • 125 : 299
    • 126 : 301
    • 127 : 304
    • 128 : 321
    • 129 : 322
    • 130 : 336
    • 131 : 350
    • 132 : 352
    • 133 : 354
    • 134 : 356
    • 135 : 360
    • 136 : 361
    • 137 : 363
    • 138 : 365
    • 139 : 366
    • 140 : 371
    • 141 : 373
    • 142 : 374
    • 143 : 376
    • 144 : 412
    • 145 : 413
    • 146 : 414
    • 147 : 417
  • VARIANT :
    • 0 : 0
    • 1 : 1
    • 2 : 3
    • 3 : 4
    • 4 : 5
    • 5 : 6
    • 6 : 7
    • 7 : 8
    • 8 : 9
    • 9 : 10
    • 10 : 12
    • 11 : 13
    • 12 : 14
    • 13 : 15
    • 14 : 16
    • 15 : 18
    • 16 : 20
    • 17 : 24
    • 18 : 25
    • 19 : 28
    • 20 : 29
    • 21 : 30
    • 22 : 31
    • 23 : 32
    • 24 : 33
    • 25 : 34
    • 26 : 35
    • 27 : 36
    • 28 : 37
    • 29 : 38
    • 30 : 39
    • 31 : 40
    • 32 : 41
    • 33 : 42
    • 34 : 43
    • 35 : 44
    • 36 : 45
    • 37 : 46
    • 38 : 47
    • 39 : 48
    • 40 : 49
    • 41 : 50
    • 42 : 51
    • 43 : 52
    • 44 : 53
    • 45 : 54
    • 46 : 55
    • 47 : 56
    • 48 : 57
    • 49 : 58
    • 50 : 59
    • 51 : 60
    • 52 : 61
    • 53 : 62
    • 54 : 63
    • 55 : 64
    • 56 : 65
    • 57 : 66
    • 58 : 67
    • 59 : 68
    • 60 : 69
    • 61 : 70
    • 62 : 71
    • 63 : 72
    • 64 : 73
    • 65 : 74
    • 66 : 75
    • 67 : 76
    • 68 : 77
    • 69 : 78
    • 70 : 79
    • 71 : 80
    • 72 : 81
    • 73 : 82
    • 74 : 83
    • 75 : 84
    • 76 : 85
    • 77 : 86
    • 78 : 87
    • 79 : 88
    • 80 : 89
    • 81 : 90
    • 82 : 91
    • 83 : 92
    • 84 : 93
    • 85 : 94
    • 86 : 95
    • 87 : 96
    • 88 : 97
    • 89 : 98
    • 90 : 99
    • 91 : 100
    • 92 : 101
    • 93 : 102
    • 94 : 103
    • 95 : 104
    • 96 : 105
    • 97 : 107
    • 98 : 108
    • 99 : 112
    • 100 : 113
    • 101 : 114
    • 102 : 116
    • 103 : 118
    • 104 : 119
    • 105 : 120
    • 106 : 121
    • 107 : 122
    • 108 : 123
    • 109 : 124
    • 110 : 126
    • 111 : 127
    • 112 : 128
    • 113 : 141
    • 114 : 145
    • 115 : 146
    • 116 : 148
    • 117 : 152
    • 118 : 155
    • 119 : 156
    • 120 : 157
    • 121 : 158
    • 122 : 160
    • 123 : 161
    • 124 : 162
    • 125 : 165
    • 126 : 167
    • 127 : 168
    • 128 : 169
    • 129 : 172
    • 130 : 174
    • 131 : 177
    • 132 : 179
    • 133 : 181
    • 134 : 182
    • 135 : 186
    • 136 : 194
    • 137 : 195
    • 138 : 196
    • 139 : 197
    • 140 : 198
    • 141 : 199
    • 142 : 200
    • 143 : 201
    • 144 : 204
    • 145 : 205
    • 146 : 208
    • 147 : 214
    • 148 : 215
    • 149 : 216
    • 150 : 217
    • 151 : 219
    • 152 : 220
    • 153 : 222
    • 154 : 223
    • 155 : 224
    • 156 : 225
    • 157 : 230
    • 158 : 235
    • 159 : 237
    • 160 : 240
    • 161 : 241
    • 162 : 245
    • 163 : 246
    • 164 : 249
    • 165 : 268
    • 166 : 272
    • 167 : 273
    • 168 : 274
    • 169 : 276
    • 170 : 281
    • 171 : 282
    • 172 : 296
    • 173 : 297
    • 174 : 300
    • 175 : 302
    • 176 : 303
    • 177 : 305
    • 178 : 306
    • 179 : 307
    • 180 : 308
    • 181 : 309
    • 182 : 310
    • 183 : 311
    • 184 : 312
    • 185 : 313
    • 186 : 314
    • 187 : 315
    • 188 : 316
    • 189 : 317
    • 190 : 318
    • 191 : 319
    • 192 : 320
    • 193 : 323
    • 194 : 324
    • 195 : 325
    • 196 : 326
    • 197 : 327
    • 198 : 328
    • 199 : 329
    • 200 : 330
    • 201 : 331
    • 202 : 332
    • 203 : 333
    • 204 : 334
    • 205 : 335
    • 206 : 337
    • 207 : 338
    • 208 : 339
    • 209 : 340
    • 210 : 341
    • 211 : 342
    • 212 : 343
    • 213 : 344
    • 214 : 345
    • 215 : 346
    • 216 : 347
    • 217 : 348
    • 218 : 349
    • 219 : 351
    • 220 : 353
    • 221 : 355
    • 222 : 357
    • 223 : 358
    • 224 : 359
    • 225 : 362
    • 226 : 364
    • 227 : 367
    • 228 : 368
    • 229 : 369
    • 230 : 370
    • 231 : 372
    • 232 : 375
    • 233 : 377
    • 234 : 378
    • 235 : 379
    • 236 : 380
    • 237 : 381
    • 238 : 382
    • 239 : 383
    • 240 : 384
    • 241 : 385
    • 242 : 386
    • 243 : 387
    • 244 : 388
    • 245 : 389
    • 246 : 390
    • 247 : 391
    • 248 : 392
    • 249 : 393
    • 250 : 394
    • 251 : 395
    • 252 : 396
    • 253 : 397
    • 254 : 398
    • 255 : 399
    • 256 : 400
    • 257 : 401
    • 258 : 402
    • 259 : 403
    • 260 : 404
    • 261 : 405
    • 262 : 406
    • 263 : 407
    • 264 : 408
    • 265 : 409
    • 266 : 410
    • 267 : 411
    • 268 : 415
    • 269 : 416
    • 270 : 418
    • 271 : 419
    • 272 : 420
    • 273 : 421
    • 274 : 422
    • 275 : 423
    • 276 : 424
    • 277 : 425
Returns the consensus string for an alignment set
??E????????P?????E?F?DLW??LP??????????????????????????????????????????????????????????????????????????????S??VPS???Y?G???????F???GTAKSVTCTYSP?LNK??C?LAK?CP????V???PP?G???RA?A?YK?S?H??EVV?RCPHHER????????AP??HL?RVEGN????Y??D????RHSV?VPYE?P?VG??CTT??YN?MCNSSCMGGMNRRPILTI?TLE???G?LLGR??FEVRVCACPGRDR??EE?N??K????????????????KR?????????????P?????????????D?E?F?L???GR?R?EM????N?AL?L???????????????????????????????????KKL??K????????
Adding a new sequence object
Primary accession Entry name Length Mol type Sequence
sp|P07193|P53_XENLA 426 
-MEPSSETGMDP-PLSQETFEDLWSLLPDPLQTVTCR------------LDNLSEFPDY------PL-AADMT-----------V-------LQEGLMGNAVPTVTSCAVPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSG--------KRELAH--PPS--SEPPLPK-KRLVVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQK--------VTIKCR--KCRDEIKPKKGKKLLVKDEQPDSE-
sp|P10360|P53_CHICK 426 
MAE-----EMEPLLEPTEVFMDLWSMLPY-------------SMQQLPLPEDHSNWQELSPLEPSDP---PPPPPPPPLPLAAAA-------PPPLNPPTPPRAAPSPVVPSTEDYGGDFDFRVGFVEAGTAKSVTCTYSPVLNKVYCRLAKPCPVQVRVGVAPPPGSSLRAVAVYKKSEHVAEVVRRCPHHERCGGGTDGLAPAQHLIRVEGNPQARYHDDETTKRHSVVVPYEPPEVGSDCTTVLYNFMCNSSCMGGMNRRPILTILTLEGPGGQLLGRRCFEVRVCACPGRDRKIEEENFRKRGGAG--------GVAKRAMSP--PTEA-PEPPKKR-----VLNPDNEIFYLQVRGRRRYEMLKEINEALQLAEGGSAPRPSKGRR----------VKVEGPQPSCGKKLLQKGSD-----
sp|P51664|P53_SHEEP 426 
MEESQAELGVEP-PLSQETFSDLWNLLPENNLLSSELS-AP-VDDLLPYSEDVVTWLDE--CPNEAP---QMPEPPAQA-----------------ALAPATSWPLSSFVPSQKTYPGNYGFRLGFLHSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRSPHHERSSDYSDGLAPPQHLIRVEGNLRAEYFDDRNTFRHSVVVPYESPEIESECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSRGNLLGRSSFEVRVCACPGRDRRTEEENFRKKGQSCPEPP---PGSTKRALPS--STS--SSPQ-QK-----KKPLDGEYFTLQIRGRKRFEMFRELNEALELMDAQAGREPGESRAHSSHL-----KSKKGPSPSCHKKPMLKREGPDSD-
Dropping a sequence
Primary accession Entry name Length Mol type Sequence
sp|P07193|P53_XENLA 426 
-MEPSSETGMDP-PLSQETFEDLWSLLPDPLQTVTCR------------LDNLSEFPDY------PL-AADMT-----------V-------LQEGLMGNAVPTVTSCAVPSTDDYAGKYGLQLDFQQNGTAKSVTCTYSPELNKLFCQLAKTCPLLVRVESPPPRGSILRATAVYKKSEHVAEVVKRCPHHERSVEPGEDAAPPSHLMRVEGNLQAYYMEDVNSGRHSVCVPYEGPQVGTECTTVLYNYMCNSSCMGGMNRRPILTIITLETPQGLLLGRRCFEVRVCACPGRDRRTEEDNYTKKRGLKPSG--------KRELAH--PPS--SEPPLPK-KRLVVVDDDEEIFTLRIKGRSRYEMIKKLNDALELQESLDQQK--------VTIKCR--KCRDEIKPKKGKKLLVKDEQPDSE-
sp|P10360|P53_CHICK 426 
MAE-----EMEPLLEPTEVFMDLWSMLPY-------------SMQQLPLPEDHSNWQELSPLEPSDP---PPPPPPPPLPLAAAA-------PPPLNPPTPPRAAPSPVVPSTEDYGGDFDFRVGFVEAGTAKSVTCTYSPVLNKVYCRLAKPCPVQVRVGVAPPPGSSLRAVAVYKKSEHVAEVVRRCPHHERCGGGTDGLAPAQHLIRVEGNPQARYHDDETTKRHSVVVPYEPPEVGSDCTTVLYNFMCNSSCMGGMNRRPILTILTLEGPGGQLLGRRCFEVRVCACPGRDRKIEEENFRKRGGAG--------GVAKRAMSP--PTEA-PEPPKKR-----VLNPDNEIFYLQVRGRRRYEMLKEINEALQLAEGGSAPRPSKGRR----------VKVEGPQPSCGKKLLQKGSD-----
sp|P51664|P53_SHEEP 426 
MEESQAELGVEP-PLSQETFSDLWNLLPENNLLSSELS-AP-VDDLLPYSEDVVTWLDE--CPNEAP---QMPEPPAQA-----------------ALAPATSWPLSSFVPSQKTYPGNYGFRLGFLHSGTAKSVTCTYSPSLNKLFCQLAKTCPVQLWVDSPPPPGTRVRAMAIYKKLEHMTEVVRRSPHHERSSDYSDGLAPPQHLIRVEGNLRAEYFDDRNTFRHSVVVPYESPEIESECTTIHYNFMCNSSCMGGMNRRPILTIITLEDSRGNLLGRSSFEVRVCACPGRDRRTEEENFRKKGQSCPEPP---PGSTKRALPS--STS--SSPQ-QK-----KKPLDGEYFTLQIRGRKRFEMFRELNEALELMDAQAGREPGESRAHSSHL-----KSKKGPSPSCHKKPMLKREGPDSD-

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