wc-1

Ncra_wc-1       -----------------------------MNNNYYGSPLSPEELQHQMHQHQQQQQQQQQQQQQQQQQQQQQQQQQQQ------QHQHQQQQKTNQHRNAGMMNTPPTTNQGNSTIHASDVTMSGGSDSL  95     PAS_4  PAS_9 
Asub_wc-1       -----------------------------MGQGASMDAMAGHSLDDIVSQNAKLMRRQSMPQSFHSAQQQQQQQQQQQQQQAQAQPQQAQPMDTDDPRRMSMMEFTGTSPTG--PLEAYQFSLQN-PDMV  98     PAS_9  PAS_4  PAS_11 
Anam_wc-1       MSGYNPYASGHGHQGDGMQQMDMSANGQIMAQGPVMDAMPGHSLDDIVSQNAKLMRRQSMSQGFHPGQQQQQQQQLPQ----------TQPMDTDDPRRMSMMEFTGTSPTG--PLESYQFSLPN-SDMV  117    PAS_9 
Apul_wc-1       -----------------------------MGQGAGMDAMAGHSLDDIVNQNAKLMRRQSMPQVFHPQQQQQHQQPLP------------QHMDTDDPRRMSMMEFTGTSPTG--PLESYQFSLPN-SEMV  86     PAS_9  PAS_4  PAS_11 
Amel_wc-1       MSGYNPYASGHGHQGDGMQQMDMSANGQIMAQGAAMDAMVGQSLDDIVSQNAKLMRRQSMPQIYHPGQQQQQQPQG------------TQPMDTDDPRRMSMMEFTGTSPTG--PLESYQFNLPN-SDMV  115    PAS  PAS_9  PAS_4 
                                              * :.   ..:  ..*:. : *: :  ::*.  *  :  ****:*                *  .*:: *. .**: . *:  *  .:.:  ..: . .: 

Ncra_wc-1       DEIIQQNLDEMHRRRSVPQPYGGQTRRLSMFDYANPNDGFSDYQLDNMSGNYGDMTGGMGMSGHSSPYAGQNIMAMSDHSGGYSHMSPNVMGNMMTYPNLNMYHSPPIENPYSSAGLDTIRTDFSMDMNM  225   
Asub_wc-1       DATAFMAASQSHSHPTLQRRQSSTGGVGGGGDMALDNGFAPTSSFMPMMPPTSSYQSPANLSN-MDMDLNSPYINTPMHMSSLGYNSPNIERQMPMYS-HNSYHG-MMNSPLNTSVPNHMYAQ-SPDAGG  224    PAS_11 
Anam_wc-1       DATAFMAASQVNPAMAS--RQSSIG----GADLAIDNGFAPTSSYMPMMPPTSSYQSPANLSNNIDMDLNSPYINTPMHMSSLGYNSPNIDRPAPMYS-HNSYHG-MMNSPLHTSVPSHMYRQ-SSEPGG  238   
Apul_wc-1       DATAYMAASQANPNMQPQRRLSSTA----GNDMAIDNGFGPTSSFMPMMPATSSYQSPAHLSN-LDMDLNSPYINTPMHMSSLGYNSPNIDRPMSMYG-HTPYHPGMMNSPMNTSMPNHMYAQ-SPEASG  209    PAS_11  PAS 
Amel_wc-1       DATAYMAASQANPSNLA--RQTSTG----GGDLAIDNSFASASSFMPMMPPTSSYQSPANLSN-MDMDLNSPYINTPMHMSSIGYNSPNIDRPMAMYN-HPSYHHGMMASPLNTSVPNHMYTQ-SPEAGG  236   
                :*       .: :          .        * *  *.  .  .   *    ..  .   :*.  .   ..  :  . * .. .: ***:      *     **   :  *  ::  . :  : * : .

Ncra_wc-1       DSGSVSAASVHPTPGLNKQDDEMMTMEQGFGGGDDANASHQAQQNMGGLTPAMTPAMTPAMTPGVSNFAQGMATPVSQDAASTPATTFQSPSLSATTQTIRIGPPPPPSVTNAPTPAPFTSTPSGGGASQ  355   
Asub_wc-1       NPNPPKRPSLENSHSRSSNSQTMQPSHRHSRQPTPQRQNSS-RPQQPQRQPSGFPAQPQNPQPGSR---QDVGMDRGRHGDSGVGPQPDASRYNPNNQNFNWPTP------EGGWPSTMTGKP--HMHSQ  342   
Anam_wc-1       NPNPPKRPSLEHSHSRSSTSQTMQNTHQQSRQPTPQRQNS--RPSQNSRQHSGFKAQPQNPQPGSR---QDVGMDRGRNTNSKPDRSPDPSKYNPNNQGFNWPTP------EGGWPSTMTGKP--HMHSQ  355   
Apul_wc-1       NPTP-KRPSLENSHSRSSKSQSMQTPNPHSRGPTPQRQNSN-RPPQNQRQHSGFRAQPQNPPPGSR---QDVGMDRGRSSDATNTPQVDPSRYNPNNQGFNWPVP------EGGWPSTMTGKP--HMHSQ  326   
Amel_wc-1       NPNPSKRPSLENSQSRSSTSQNMQNTHQQSRQPTPQRQNTNRQQPQNQRQHSGFRAQPQNPQPGST---QDVGMDRGRNSDSG-HRSPDPSKYNPNNQGFNWPTP------EGGWPSTMTGRP--HMHSQ  354   
                 :. . . .*:. : . .. .: *   .         . .   :        :   * .    **     *.:.   .:   :      :..  ....*  .   *      :.  *:.:*. *     *

Ncra_wc-1       TKSIYSKSGFDMLRALWYVASRKDPKLKLGAVDMSCAFVVCDVTLNDCPIIYVSDNFQNLTGYSRHEIVGRNCRFLQAPDGNVEAGTKREFVENNAVYTLKKTIAEGQEIQQSLINYRKGGKPFLNLLTM  485    PAS_4  PAS_9 
Asub_wc-1       YKNAYSSTGFDMLGVLMRVATRSNPEINIGSVDLSCAFVVCDAEKDDFAIVYCSDNFERLTGYTRHMILGRNCRFLQSPDGNVEAGVRRKYVDDDSVLYLKNMINLRREAQISLINYRRGGQPFMNLLTM  472    PAS_4  PAS_9 
Anam_wc-1       YKNAYSSTGFDMLGVLMRVATRPNPEINIGSVDLSCAFVVCDAEKDDFPIVYCSDNFERLTGYTRHMILGRNCRFLQSPDGNVEAGVRRKYVDDDSVLYLKNMINLRREAQISLINYRRGGQPFMNLLTM  485    PAS_4  PAS_9 
Apul_wc-1       YKNAYSSTGFDMLGVLMRVATRPNPEINIGSVDLSCAFVVCDAEKDDFPIVYCSDNFERLTGYTRHMILGRNCRFLQSPDGNVEAGVRRKYVDDDSVLYLKNMINLRREAQISLINYRRGGQPFMNLLTM  456    PAS_4  PAS_9 
Amel_wc-1       YKNAYSSTGFDMLGVLMRVATRPNPEINIGSVDLSCAFVVCDAEKDDFPIVYCSDNFERLTGYTRHMILGRNCRFLQSPDGNVEAGVRRKYVDDDSVLYLKNMINLRREAQISLINYRRGGQPFMNLLTM  484    PAS_4  PAS_9 
                * *. **.:***** .*  **:* :*:::: :**:********.  :* .*:* ****:.****:** *:********:********.:* :*::::*  **: *   :* * ******:**:**:****

Ncra_wc-1       IPIPWDTEEIRYFIGFQIDLVECPDAIIGQEGNGPMQVNYTH-SDIGQYIWTPPTQKQLEPADGQTLGVDDVSTLLQQCNSKGVASDWHKQSWDKMLLENADDVVHVLSLKGLFLYLSPACKKVLEYDAS  614    PAS_9  PAS  PAS_4 
Asub_wc-1       IPISWDTDQVKFFVGFQVDLVEQPNAVTDRNPDGTYSINYQRGMTMPRYVMNAPESTAHRGELGQTIPRDDVSAILSTIGSG--ESEFAKRMWDKVLLENTDDVIHVLSLKGLFQWISPSASRVLEYEPG  600    PAS_9  PAS  PAS_4 
Anam_wc-1       IPISWDTDQVKFFVGFQVDLVEQPNAVTDRNPDGTYAINYQRGMTMPRYVMNAPESTANRGELGQTIPRDDVSAILSTIGTG--ESDFAKRMWDKVLLENTDDVIHVLSLKGLFQWISPSASKVLEYEPG  613    PAS_9  PAS  PAS_4 
Apul_wc-1       IPISWDTDQVKFFVGFQVDLVEQPNAVTDRNPDGTYSINYQRGMTMPRYVMNAPESTVNRSELGQTIPRDDVSAILSTIGTG--ESDFAKRMWDKVLLENTDDVIHVLSLKGLFQWISPSAVKVLEYEPG  584    PAS_9  PAS  PAS_4 
Amel_wc-1       IPIAWDTDQVKFFVGFQVDLVEQPNAVTDRNPDGTYSINYQRGMTMPRYVMNAPESTVNRSELGQTIPRDDVSAILSTIGTG--ESDFAKRMWDKVLLENTDDVIHVLSLKGLFQWVSPSATKVLEYEPG  612    PAS_9  PAS  PAS_4 
                ****.***:::::*:***:* ** *:*: .:: :*.  :** :   : :*: ..* ..  .   ***:  ****::*.   :    *:: *: ***:****:***:********* ::**:. :****:.

Ncra_wc-1       DLVGTSLSSICHPSDIVPVTRELKEAQQHTPVNIVFRIRRKNSGYTWFESHGTLFNEQGKGRKCIILVGRKRPVFALHRKDLELNGGIGDSEIWTKVSTSGMFLFVSSNVRSLLDLLPENLQGTSMQDLM  744    PAS_9  PAS_4  PAS 
Asub_wc-1       EIIGTALSSICHPSDIVPVTRDLKDTSTGASVNVVFRIRRKNSGYMWFEGHGSLHTEQGKGRKSIIMVGRERPVYALSRNELTGNNGVGENELWTKMSTSGMFLFVSSNVRQLLDRQPDELVGVSIQSLM  730    PAS_9  PAS  PAS_11  PAS_4 
Anam_wc-1       EIIGTALSSICHPSDIVPVTRDLKDTSTGASVNVVFRIRRKNSGYMWFEGHGSLHTEQGKGRKSIIMVGRERPVYALNRNELIGNNGVGENELWTKMSTSGMFLFVSSNVRQLLDRQPDELVGVSIQSLM  743    PAS_9  PAS  PAS_11  PAS_4 
Apul_wc-1       EIIGTALSSICHPSDIVPVTRDLKDTSTGASVNVVFRIRRKNSGYMWFEGHGSLHTEQGKGRKSIIMVGRERPVYALSRNELTGNNGIGENELWTKMSTSGMFLFVSSNVRQLLDRQPDELVGVSIQSLM  714    PAS_9  PAS  PAS_11  PAS_4 
Amel_wc-1       EIIGTALSSICHPSDIVPVTRDLKDTSTGASVNVVFRIRRKNSGYMWFEGHGSLHTEQGKGRKSIIMVGRERPVYALSRNELTGSNGVGENELWTKISTSGMFLFVSSNVRQLLDRQPDELVGVSIQSLM  742    PAS_9  PAS  PAS_11  PAS_4 
                .:::**:*** ***********:**::.  :.**:*********** ***.**:*..*******.**:** :***:** *::*  ..*:*:.*:***:**************.***  *::* *.*:*.*

Ncra_wc-1       RKESRAEFGRTIEKARKGKIASCKHEVQNKRGQVLQAYTTFYPGDGGEGQRPTFLLAQTKLLKASSRTLAPATVTVKNMSPGGVPLSPMKGIQTDSDSNTLMGG-MSKSGSSDSTGAMVSARSSAGPG-Q  872    PAS_9  PAS_11 
Asub_wc-1       RADSKAEFGRVLEHARTGKKASVRHEMINRRGHVLQSFTTLYPGDASEGQKPTFIVAQTRLVKHQRGNSSSRPALSQRGSESVISGRFTPATPMLMGDNTPQS--LTQYQSTDGAAPTYAGQNGLLLGRQ  858    PAS_9  PAS_4  PAS_11 
Anam_wc-1       RADSKAEFGRVLEHARTGKKASVRHEMINRRGHVLQAFTTLYPGDATEGQKPTFIVAQTRLIKHQRGNSSSRPALSQRGSESALSGKYTPATPMLLGDNTPQS--LTQLQSTDGAAPTYSGQNGLQLGRQ  871    PAS_9  PAS_4  PAS_11 
Apul_wc-1       RGESKAEFGRVLEHARTGKKASVRHELINRRGHVLSSFTTLYPGDAKEGQKPTFIVAQTRLVKHSRANSSSRPAPSQRGSETAVSGRFTPGTPMLG-DNTPQSTTLTNLQSTEGAAPTYAGQNGLLLGRQ  843    PAS_9  PAS_11 
Amel_wc-1       RADSKAEFGRVLEHARTGKKASVRHEMINRRGHVLQAFTTLYPGDATEGLKPTFIVAQTRLIKHQRGNSSSRPALSQRGSESVLSGRFTPVTPMLVGDNTPQS--LIQLQSTDGAAPTYSGQNGLQLGRQ  870    PAS_9  PAS_11 
                 * :*:*****.:*:**.** ** :**: *:**:**.::**:****. ** :***::*** *:* .  . :. ..  :. *   :.            .**  .  : :  *::.:..   .:..   * 

Ncra_wc-1       DAALD-ADNIFDELKTTRCTSWQYELRQMEKVNRMLAEELAQLLSNKKKRKRRKGGGNMVRDCANCHTRNTPEWRRGPSGNRDLCNSCGLRWAKQTGRVSPRTSSRGGNGDSMSKKSNSPSHSSPLHREV  1001   GATA 
Asub_wc-1       DGALASEDNLFDELKTTKSSSWQYEIRQLEKKNRMLAEEVQSLMASKKKRKRRKGAGQMQKDCANCHTKVTPEWRRGPSGQRDLCNSCGLRWAKLVS------------QSATNSRASADG---------  967    PAS_3  GATA 
Anam_wc-1       DGALASEDNLFDELKTTKSSSWQYEIRQLEKKNRMLAEEVQSLLAAKKKRKRRKGAGQMQKDCANCHTRVTPEWRRGPSGQRDLCNSCGLRWAKLNGRVSPWTNSQHSVHSTTSEKASKKSQSPMHPPGV  1001   PAS_3  GATA 
Apul_wc-1       DEFLASEDNLFDELKTTKSSSWQYEIRQLEKKNRMLAEEVNSLMASKKKRKRRKGAGQMQKDCANCHTRVTPEWRRGPSGNRDLCNSCGLRWAKLVS------------QSATNSRASADG---------  952    PAS_3  GATA 
Amel_wc-1       DGALASEDNLFDELKTTKSSSWQYEIRQLEKKNRMLAEEVQSLLAAKKKRKRRKGAGQMQKDCANCHTRVTPEWRRGPSGQRDLCNSCGLRWAKLNGRVSPRTNSQHSVHSTTSEKASKKSQSPMHPPGV  1000   PAS_3  GATA 
                **  *   **:*******:.:*****:**:** *******: .*:: *** *****.*:* :*******: **********:*************  .             .: ..::.  .        

Ncra_wc-1       GNDSPSTTTATKNSPSLRGSSTTAPGTITTDSGPAVASSASGTGSTTIATSANSAASTVNALGPPATGPSGGSPAQHLPPHLQGTHLNAQAMQRVHQHKQHQQHQQQHQQQHQQQHQQQHQQLQQHQFNP  1131   PAS_4 
Asub_wc-1       ----------------------------------------------------------------------------------------------------------------------------------  967   
Anam_wc-1       HG--VKTEQTTPRQQPLDALAQHGQNTNATTGYVNVTSPQQHHGPTGHAAHMEGASRVPEKIEEE-----------------------------------------------------------------  1064   GATA 
Apul_wc-1       ----------------------------------------------------------------------------------------------------------------------------------  952   
Amel_wc-1       HG--VKTESTTPRQQSLDALAQHGQNMNAPSGYVNVSSPQQHHGPTGHAANMEGASRVPEKIEEE-----------------------------------------------------------------  1063   GATA 
                                                                                                                                                  

Ncra_wc-1       PQSQPLLEGGSGFRGSGMEMTSIREEMGEHQQGLSV  1167   PAS_4  PAS 
Asub_wc-1       ------------------------------------  967   
Anam_wc-1       ------------------------------------  1064  
Apul_wc-1       ------------------------------------  952   
Amel_wc-1       ------------------------------------  1063  
                                                    

Input files: MFA/Ncra.CLOCK.v02.Aure.wc-1.aln (alignment), ALN//Ncra.CLOCK.v02.Aure.wc-1.dom.rgns (regions: exons, domains, low-complexity, etc)

5 sequences, alignment length = 1300
sequence lengths:
  1167  Ncra_wc-1
  967  Asub_wc-1
  1064  Anam_wc-1
  952  Apul_wc-1
  1063  Amel_wc-1

#domain Ncra_wc-1Asub_wc-1Anam_wc-1Apul_wc-1Amel_wc-1
1GATA1  933..968
1  920..953
1  933..968
2  1035..1047
1  905..938
1  932..967
2  1034..1046
2PAS1  8..79
2  394..504
3  578..685
4  709..789
5  1088..1137
1  4..64
2  377..491
3  563..671
4  696..769
1  392..504
2  576..684
3  709..780
1  12..105
2  362..475
3  547..655
4  680..748
1  12..83
2  391..503
3  575..683
4  708..777
3PAS_111  9..64
2  401..442
3  588..681
4  703..808
5  1076..1128
1  5..109
2  574..668
3  689..796
1  587..681
2  702..809
1  11..104
2  559..652
3  673..780
1  21..77
2  586..680
3  701..808
4PAS_31  7..58
2  404..432
3  597..681
4  716..798
5  1091..1123
1  391..418
2  584..667
3  702..786
4  863..910
1  404..431
2  597..680
3  715..799
4  878..908
1  375..402
2  568..651
3  686..770
4  847..894
1  403..430
2  596..679
3  714..797
4  877..907
5PAS_41  2..84
2  388..498
3  581..684
4  703..800
5  1050..1132
1  6..82
2  374..433
3  567..648
4  690..791
1  387..446
2  580..661
3  703..804
1  8..81
2  358..417
3  551..632
4  674..773
1  22..88
2  386..445
3  579..660
4  702..798
6PAS_91  4..63
2  389..506
3  585..682
4  706..800
1  3..60
2  376..493
3  571..670
4  692..790
1  21..77
2  389..506
3  584..683
4  705..802
1  5..73
2  360..477
3  555..654
4  676..773
1  19..83
2  388..505
3  583..682
4  704..798

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

Alignment Regions Colorize, ARC v061