vvd

Ncra_vvd        ----------------------------------------------------------------------------------------------------------MSHTVNSSTMNPWEV--------E  16    
Asub_vvd        --------------------------------------------------------------------MQQYKSTQQESGWSPTN------------DMVPTTYGRATDYRSSSGLSDTNN--------R  42    
Anam_vvd        ---------------------------------------------------MEHLAMRFFSVDHLNIILRDYQSSARFHRFLTQYRPYTLPSLESYVDTQKAVAAIEYANSLADNLPSLTG---DIPRPA  76    
Apul_vvd        ---------------------------------------------------MEHLSMRFFSADHLNIILRDYQLSARFHRFLTQYKPYILPAFDSYVDTQKAVAAIEYANSLANSLPSLTG---DTPRPA  76    
Amel_vvd        SIAPSIYTLPPLQAPGPVDDDVDRLQPLLEDDPANFDLVAAPPEEVNQTYRLDEHAEQLLSRQHLEAIFADRKTLLKFTGFLNSHRPSSIPILVFYMDALKALRAIKYANAVSSALHPISGLDFTSTPPQ  130   
                                                                                                                                 :. :             

Ncra_vvd        AYQQYHYDPRTAPTANPLFFHTLYAPGGYDIMGYLIQ-----IMNRPNPQVELGPVDTSCALILCDLKQKDTPIVYASEAFLYMTGYSNAEVLGRNCRFLQSP------------DGMVKPKSTRKYVDS  129    PAS_8  PAS_9 
Asub_vvd        EDAKREEQSSTNTVAPSWFYDGLYSPSGFNIIDILIR-----VQRRQNPQIELGVLDANVALLLCDTSLPDLPIVYCSDGFEDLTGYMRTEIIGRNCRFLQTPPQASSHNHYRTSSGQLAQPPVRRPQDQ  167    PAS_9 
Anam_vvd        AVMEKRFEERSRLVVQELVDDALPAYLTHRLVTIVTDSLVKEITGNIAPILRDLIPSLAEVYCISDPSLPDNPIVYASEAFYDISGYQKDFVIGRNCRFLQGPKSSSASVHRLIEALRAGQEITETLLNY  206    PAS  PAS_9 
Apul_vvd        AVMDESFQERSKMVVQELVDDALPAYITHRLVTVVTDSLVKEITGNNAPIMRELIPSLAEVYCITDPSIPDNPIVYASEGFYDISGYQKDFVIGRNCRFLQGPKTSSSSVHRLIEAIRAGQEVTETMLNY  206    PAS  PAS_9 
Amel_vvd        TTQNQELQNKADQAFDLLVRDDLPAYITWTWISIVSTSIQRRITGTLAPHLREASEGLAEVFCLTDPSRKDNPIVFASEEFARTTQYGMGYSIGRNCRFLQGPRTNPHSIRRLAEACTVPREHSEIFVNY  260    PAS_9 
                    .   :  :  .    . . * :      :  :       :     * :.    .   .  : * .  * ***:.*: *   : *     :******** *                     .   :

Ncra_vvd        NT-------------INTMRKAIDRNAEVQVEVVNFKKNGQRFVNFLTMIPVRDETGEY-----RYSMGFQCETE-------------------------------------------------------  186    PAS_9  PAS 
Asub_vvd        QN-------------LAHFKQIIMDRKEVQMVVTNYTKYGMVFPNMITVIPIDLGEGASPAELPRYLVGFQVNARSLVQYHHS-----------------------------------------------  237    PAS_9 
Anam_vvd        RRDGIPFMNLLLIAPLYDNKGSVRYFLGAQVDVSHLIEGGKGIESFEKLLANDRAEERYRGRSNRKPTQVLGELGQMMNDDELDAINTRQRSQSRSSTPAT-SSRNPIPIRHGRKVFG-MDDSSEHGLWP  334    PAS_9  PAS_4 
Apul_vvd        RRDGIPFMNLLMIAPLYDNKGNVRYYLGAQIDVTHLIEGGKGLESFEKLLANDRTEERYRGRSSRKPTQVLGELGAMMNKDELDAVNTRQRSESRESTSAAGSARNVTPARPARRVLG-MDDSLERTLWP  335    PAS_9  PAS_4 
Amel_vvd        RRDGSPFINLLMIAPLYDSKGTLRYFIGAQVDVSGLLKEMTGMEALKKMTNRDEDED-----GQEHLNNEFENLSEMFSTTELDTVRQCGGRMHREQIDDE--RDNGVQPRPRLLITDQSDENMNQSTQP  383    PAS_9 
                 .              :   :  :     .*: *    :    :  : .:               .       :                                                        

Ncra_vvd        ----------------------------------------------------------------------------------------------------------------------------------  186   
Asub_vvd        ----------------------------------------------------------------------------------------------------------------------------------  237   
Anam_vvd        --HPSLGPS--------GRLPGVYQNYLLVRPYPSLRITFTSPALRIPGLLQTKFMERLGGPQEVRDGVLDSLSHGTPVTAKVSWLSTPSQPGSPHRNSIEGKPRWIHCTPMLGSDEKVGVWMVVMVEQE  454    PAS_9 
Apul_vvd        --HPSLGPS--------GRLPGVYQNYLLVRPYPSLRITFTSPALRIPGLLQTKLMDRLGGPQDVRDGVLDSLAHGTAVTAKISWLSTPTTINTSHRTSIEGKPRWIHCTPMLGSDEKVGVWMIVMVEQE  455    PAS_9 
Amel_vvd        PNNPASGPNGVQRMPENGRLAGVYEHYLLVRPAPSLRILFTSPSLRVPGILQSPFLSRIGGSPRVRTELAQAFAEGRGVTAKIRWLTRIEEDGED-----EGRSRWIHCTPLIGHGGAVGVWMVVLVDEE  508    PAS_9 
                                                                                                                                                  

Ncra_vvd        -----------------------------------------------------------------------------------------  186   
Asub_vvd        -----------------------------------------------------------------------------------------  237   
Anam_vvd        VVTGNLTRPTEVINTFPSPPPNVIG-RSSLDTPVRGGEGARSPRFKAETGKLYAEYLRREGRNDMSHGGIADE--RSGSPREARPFQDF  540   
Apul_vvd        TVTGSLRRPSEVINTFPSPPANVIGGRESLDIPVRGGEGARSPRFKAETGKLYAEYLRREGKSPPRDGGAGGTPSRGSSMREARPFQEF  544   
Amel_vvd        GSR-SKRRFR------PAPP----------VSQVIGG----------------------------------------------------  528   
                                                                                                         

Input files: MFA/Ncra.CLOCK.v02.Aure.vvd.aln (alignment), ALN//Ncra.CLOCK.v02.Aure.vvd.dom.rgns (regions: exons, domains, low-complexity, etc)

5 sequences, alignment length = 650
sequence lengths:
  186  Ncra_vvd
  237  Asub_vvd
  540  Anam_vvd
  544  Apul_vvd
  528  Amel_vvd

#domain Ncra_vvdAsub_vvdAnam_vvdApul_vvdAmel_vvd
1PAS1  70..182
01  126..238
2  396..449
1  125..238
2  404..450
0
2PAS_41  68..180
01  145..243
1  144..243
2  408..452
0
3PAS_81  68..127
0000
4PAS_91  69..181
1  95..216
1  134..240
2  376..451
1  134..240
2  396..452
1  188..294
2  303..364
3  429..506

ARC.colors file was not found, using default colors.

Alignment Regions Colorize, ARC v061