fwd-1

Ncra_fwd-1      MAGFPPRNQQHIQPDEGYSEDPLNPQANSSCLKSRDASPCAHPSSRQASDIPPWLIQHISGLSMENKTELAMALLNDLP----------------TSVISQIVETQLYPRLYIDFVRYLPAEICLKILGY  114    F-box-like 
Asub_fwd-1      MA------QEEMKVDEGYSGGSEETRSLSDSDSTMHIDPVDGHVSKSSTPTLESMLSDVLSLPPDQRAAFISSLLRIIPESERYDTAYAALRSLRTSSVASIVER-LNPLLHLDPVAILPPEITSQIFLH  123    F-box  F-box-like 
Anam_fwd-1      MA------QEEMKVDEGYSGGSEETRSLSDSDSTMHIDPVDGHVSKSSTPNFESMLSGVLGLPPAQRSAFIASLLQLLPESERYETAYTALRSLRTSSIASIVER-LNPLLHLDPVVFLPPEITSQIFLH  123    F-box-like 
Apul_fwd-1      MA------QEEMKVDEGYSGGSEETRSLSDSDSTMLIDPADGHVSKSSTPTQESLLSGVLSLPPDQRSAFIASLLRLLPESERSDTAYAALRSLRTSSIASIVER-LNPLLHLDPVVFLPPEITSQIFLH  123    F-box-like 
Amel_fwd-1      MA------QEEMKVDEGYSGGSEETRSLSDSDSTMHIDPVDGHVSKSSTPSPESMLSGVLSLPPAQRSAFITSLLRLLPDSERYDTAYAALRSLRTSSIASIVER-LNPLLHLDPVVFLPPEITSQIFLH  123    F-box-like 
                 **      *:.:: ***** .. :.:: *.. .:   .*     *:.::     ::. : .*.  ::: :  :**. :*                ** ::.***  * * *::* *  * .**  :*: 

Ncra_fwd-1      LDPISLINVARACRVWYELAMDRKLWQHLYYMEGFKALMDEIHAAEEKMNQTPIPTPSHLEQYRP--EEDGHVHKRRAIAKASPPMLPADEDTKVLPADEPCDIDMAGSSIFGGGGGGGGCGASRSRMSE  242    F-box-like 
Asub_fwd-1      LSPSDLLRCSTASRLWRERVLDSTLWRTFYAREGWMPDVSEVRSGEAAEARRRLALSRSNSQKPPRRKPDGELERSGSIKRTKETIDGWNEQHGVLEADDDAALQES-----------EDSAASLSAMSL  242    F-box-like 
Anam_fwd-1      LSPSDLLRCSTASRLWRERVLDSTLWRTFFAREGWMPDLAEVRSGEAAEARRRV-LSRSTPQKPPRRKPDGELERSGSIKRAKETVNGWNEQHSTLEADEDAILQDP-----------EDGAASLSAMSL  241    F-box-like 
Apul_fwd-1      LSPSDLLRCSTASRLWRERVLDSNLWRTFYAREGWMPDTAEVRSGEAAEARRRLVFSRNTPQKPPRRKPDGELERSGSIKRAKETVDGWNEQHSILEADEDAIKPES-----------EDGAASLSAMTL  242    F-box-like 
Amel_fwd-1      LSPSDLLRCSTASRLWRERVLDSTLWRTFFVREGWMPDLAEVRSGEAAEARRRLSLSRNTTQKPPRRKPDGELERSGSIKRAKESVDGWNEQHSTLEADDDAVLQES-----------EDGAASLSAMSL  242    F-box-like 
                :*.* .*:. : *.*:* * .:* .**: ::  **: .   *:::.*    :  :  .    *  *  : **.:.:  :* ::. .:   :*:   * **: .    .            . .** * *:

Ncra_fwd-1      HGEVSGRARRVDKGKGRAMSPPPQQSATTRYRDSMSHRTSILPGTLQKTTLWWWDANDRRYKIDWKYLYTMRRRLEANWEHGKYTNFQLPHPNYPEEGHRECIYSIQYNPQFLVSGSRDLTIKVWDMKSR  372    WD40 
Asub_fwd-1      ASEAD-------------------------YLDISPSTTDLSSSMLPPLSPPLYNTYSSSPRINWLHLYKQRRRLEENWNKGRYKTFQLPHPDHPEEAHDECVYTIQHSRDWLVSGSRDKTIAIWDLETQ  347    WD40 
Anam_fwd-1      ASEAD-------------------------YLDIIPG-TDLSSNLLPQLSPSLYNTYASAPRINWLYLYKQRRRLEDNWNKGRYTTFQLPHPDHPDEAHDECVYTIQHSRDWLVSGSRDKTIAIWDLETQ  345    WD40 
Apul_fwd-1      VSEAD-------------------------YLDISPN-IDLSSNMLPPLSPPLYNTYSNSPRINWLYLYKQRRRLEENWNKGRFKTFQLPHPDHPEEAHNECVYTIQHSRDWLVSGSRDKTIAIWDLETQ  346    WD40 
Amel_fwd-1      ASEAD-------------------------YLDIAPG-ADPSSGSLPQLSSSLYGTYNASPRVNWLYLYKQRRRLEDNWNKGRYTTFQLPHPDHPEEAHDECVYTIQHSRDWLVSGSRDKTIAIWDLETQ  346    WD40 
                  .*..                         * *  .      .. *   :   :.:     :::* :**. ***** **::*::..******::*:*.* **:*:**:. ::******* ** :**:::

Ncra_fwd-1      RCLRTLKG-HRRSVLCLQFDSSPDEDIIVSGSSDSDVIIWRFSTGEIIEVLRHAHQESVLNVKFDKRILVTCSKDKTIKVFNRRPLRHGDLGYPFDQVGTTVNVGYDIPPSIEDAPVIPPWTMIGTLVGH  501    WD40 
Asub_fwd-1      RRVRTLSGAHEASVLCLQFDERPAQDIVVSGGSDSFVVIWRFSTGRIIRKMDEAHTESVLNLRFDDDLLITCSKDKTIKIWNRR-----EVFADSNVVPAVARRQLEMENPMN---PIKEYTLLLELLGH  469    WD40 
Anam_fwd-1      RRVRTLSGAHIASVLCLQFDERPDQDIVVSGGSDSFVVIWRFSTGRIIRKMDEAHTESVLNLRFDDDLLITCSKDKTIKIWNRR-----ELFLDNDLVPAVAKRQLEIGHPMN---PIKEYSLLLTLLGH  467    WD40 
Apul_fwd-1      RRIRTLSGAHIASVLCLQFDERPEQDIVVSGGSDSFVVIWRFSTGRIIRKMDDAHTESVLNLRFDDDLLITCSKDKTIKIWNRR-----EVFVDNDIVPAVAKRQLEIGNPMN---PIKEYTLLLTLMGH  468    WD40 
Amel_fwd-1      RRVRTLSGAHIASVLCLQFDERPEQDIVVSGGSDSFVVIWQFSTGRMIRKMDDAHTESVLNLRFDDDLLITCSKDKTIKIWNRR-----EVFADSDIIPAVAKRQLEIGHPMN---PIKEYSLLLTLLGH  468    WD40 
                :* :***.* *  ********. * :**:* *.*** *:**:****.:*. : .** *****::**. :*:*********::***      :    : : :...   ::  .::    *  ::::  *:*

Ncra_fwd-1      SAAVNAVQIHEREIVSASGDRYIKVWDWPTQDVQRTIIGHHKGIACVQYDGRRIVSGSSDNEVKIFDCQTGLEVTTLKGHTALVRTVQAGFGDHPYSVEEDLIKAKEVDQAYYKAVEAGEIDENDNPRTR  631    WD40 
Asub_fwd-1      NAAVNAIQMHKGQIVSASGDRTIKAWDINTGTCTRTFTGHTKGIACVQYDGRRIVSGSSDNTVRIFDAATSAEVACLPGHSNLVRTVQARFGDTSVSSEELEADARAVDERFHDARMNGLNPDQN--RAR  597    WD40 
Anam_fwd-1      GAAVNAIQMHQGQIVSASGDRTIKQWDINTGICTRTFTGHTKGIACVQYDGRRIVSGSSDNTVRIFDAATSAEVACLPGHSNLVRTVQARFGDMAISSEELEADARAVDERFHDARMNGLNPDQN--RVR  595    WD40 
Apul_fwd-1      GAAVNAIQMHQGQIVSASGDRTIKAWDINTGTCTRTFTGHTKGIACVQYDGRRIVSGSSDNTVRIFDAATSAEVACLPGHSNLVRTVQARFGDMGVSSEELEADARAVDDKFHDARMNGLNPDQN--RAR  596    WD40 
Amel_fwd-1      GAAVNAIQMHQGQIVSASGDRTIKAWDINTGTCTRTFTGHTKGIACVQYDGRRIVSGSSDNTVRIFDAATSAEVACLPGHSNLVRTVQARFGDMSVSSEQLEADARAVDERFHDARMNGLNPDQN--RVR  596    WD40 
                *.*****:*:*: :****** * ** **  *    **: ** ******************** *:***. *. **: * * : ******* ***   * *:   .*: **: ::.*   *   :::  *.

Ncra_fwd-1      RKTNAGSSRPQDVCATGAKLPPGGGGGRFGRIVSGSYDTTIIIWRRDSEGVWRPQHHLRHEQAAEAASRRDDGPPDVPGRIPLHPSMRSGLAAASMPAPINPHTTAGSSRTASAPPGPLAGRAPETVDPA  761    WD40 
Asub_fwd-1      GQRNAGSSNPTEVCAVGAKIPPGGGGNAWSRIVSGSYDETVIIWKKDSDGKWVPSRRLRQDEILQTRRRSRIQP--IVAAAAPQQGAPE-----------------------------------------  684    WD40 
Anam_fwd-1      GQRNAGSSNPNEVCAVGAKIPPGGGGNAWSRIVSGSYDETVIIWKKDSDGKWVPSRRLRQDEILQNRRRSRVQAAAAVQQVTQQPRQNS-----------------------------------------  684    WD40 
Apul_fwd-1      GQRNAGSSNPSEVCAVGAKIPPGGGGNAWSRIVSGSYDETVIIWKKDSDGKWVPSRRLRQDEILSNRRRSRVQPA-AVAAAVLQPTATQ-----------------------------------------  684    WD40 
Amel_fwd-1      GQRNAGSSNPNEVCAVGAKIPPGGGGNAWSRIVSGSYDETVIIWKKDSDGKWVPSRRLRQDEILQT----------APQQVTPQPPQNS-----------------------------------------  675    WD40 
                * : *****.  :***.***:******. :.******** *:***::**:* * *.::**:::  .                  :    .                                        

Ncra_fwd-1      ILLEYEQMVHGAVQSGPTAFRNLLQARPEIISLRHMVDRALNRQSDPNLRAQLRTAWTGAHIQNQWNHGRARSNQENAMAANAAVAAGSSNGVIGTGTATATATAAAAALAAGAAAGQPVISQASLSQVP  891   
Asub_fwd-1      ------------------------------------------------------------------------QTQHNTGGQDAIALAGQS--------SASHARPQFP-----PASPPSPQVPQHVQNHA  729   
Anam_fwd-1      ------------------------------------------------------------------------ADEQDTNVQPAQSTLSVS--------APVQDAQLQQDLQQLAQINMQQQAQQHAQNHA  734   
Apul_fwd-1      ------------------------------------------------------------------------RDRDNANPAEGVDLFSDT--------YAATYMAQLA-----APTPP-------AQNIA  722   
Amel_fwd-1      ------------------------------------------------------------------------PDAQDTAAQSAMFAASAS--------VTAPAVWPAS----ASAPQMQQQVQQQTQNHA  721   
                                                                                            .::    .    . :         .             .            .: 

Ncra_fwd-1      VPVAPADAVTAAPAQQPQLPPMAGGRHHPHIPPVAPAEENAPRVFKLQYDARRIICCSQTSYIVGWDFCNGDKELEEASRFFDTVQ  977   
Asub_fwd-1      GPAGP------PATHHHHHGHHG-AGHHGRL--AGRHRDDSNRVFKLQFDSRRIVCCSQNRVIVGWDFAAGDIDLEQASRFFGETD  806    WD40 
Anam_fwd-1      GPAAPP-----ANHHHHHHGHHGAAGHHGR----HRVREDSNRVFKLQFDSRRIVCCSQNRVIVGWDFAAGDTDLEQASRFFGETD  811    WD40 
Apul_fwd-1      GPATPG-----PATHHHHHGHHG-AGHHARH--AHRNRDESNRVFKLQFDSRRIVCCSQNRVIVGWDFAAGDADLEQASRFFGETD  800    WD40 
Amel_fwd-1      GPAGPP-----ANHHHHH-------GHHNR----HRVREDSNRVFKLQFDSRRIVCCSQNRVIVGWDFAAGDADLEQASRFFGETD  791    WD40 
                . *. *      .  :: :        ** :       .::: ******: :***:****.  ******. ** :**:*****. .

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

5 sequences, alignment length = 1040
sequence lengths:
  977  Ncra_fwd-1
  806  Asub_fwd-1
  811  Anam_fwd-1
  800  Apul_fwd-1
  791  Amel_fwd-1

#domain Ncra_fwd-1Asub_fwd-1Anam_fwd-1Apul_fwd-1Amel_fwd-1
1F-box1  101..144
1  106..153
1  110..153
1  110..153
1  110..153
2F-box-like1  74..96
2  99..145
1  108..154
1  108..154
1  108..154
1  108..154
3WD401  336..367
2  371..411
3  415..452
4  491..527
5  531..567
6  571..589
7  659..675
1  308..342
2  347..387
3  394..428
4  459..495
5  499..535
6  541..556
7  616..641
8  755..786
1  306..340
2  345..385
3  392..426
4  457..493
5  497..533
6  539..554
7  612..639
8  758..791
1  307..341
2  347..386
3  394..427
4  458..494
5  498..534
6  540..555
7  614..640
8  747..780
1  307..341
2  346..386
3  394..427
4  458..494
5  498..534
6  540..555
7  614..640
8  738..771

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

Alignment Regions Colorize, ARC v061