SUPERFAMILY 1.75 HMM library and genome assignments server

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SRCR-like alignments in Capitella sp. I

These alignments are sequences aligned to the 0035772 model.

Sophisticated options are available for refining alignments:


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Alignments

The numbers along the top are the segment numbers of the HMM states, and each sequence is seperately aligned to the model.
The first sequence is the seed the model was built from.
Upper case letters are aligned, lower case letters are insertions, '-' signifies a deletion and '.' is nothing.

                                                                                      10            
                                                                                       |            
d1by2a_                                                 ...................avn---DGDMRLAD...GGA...TN
jgi|Capca1|101300|e_gw1.789.21.1                      .....................v-----PIRLVN...GAN...SS
jgi|Capca1|74318|gw1.8173.3.1                         .....................e---HDTVRLVN...GEN...ER
jgi|Capca1|81691|gw1.25671.2.1                        ......................------IRLVD...GND...EH
jgi|Capca1|153461|estExt_Genewise1.C_5350011          .....................a------IRLVD...GND...EH
jgi|Capca1|113791|e_gw1.316.44.1                      .....................d----VKVRLGN...GLN...DR
jgi|Capca1|153473|estExt_Genewise1.C_5350050          ....................es-----SLRLVG...GRG...DW
jgi|Capca1|136968|e_gw1.2930.2.1                      ......................------VQLKN...GSN...EH
jgi|Capca1|153461|estExt_Genewise1.C_5350011          .....................i-----PIRLVG...GNS...EN
jgi|Capca1|143594|e_gw1.410.20.1                      ......................-----DVRLIG...GRN...AN
jgi|Capca1|105240|e_gw1.9104.2.1                      .....................s------IRLID...GQS...KS
jgi|Capca1|106371|e_gw1.2996.3.1                      ......................------VQLKN...GSN...EH
jgi|Capca1|135691|e_gw1.1781.3.1                      .....................r-----PVRLVD...GNS...EN
jgi|Capca1|100333|e_gw1.995.5.1                       ......................------VHLKN...GSN...EH
jgi|Capca1|74318|gw1.8173.3.1                         .....................f-------RLVG...GTN...EH
jgi|Capca1|87486|gw1.40.212.1                         ......................------IRLID...GQS...KS
jgi|Capca1|79363|gw1.535.50.1                         ......................--------LVN...GTK...IG
jgi|Capca1|142319|e_gw1.9403.1.1                      ......................------VQLKN...GSN...EH
jgi|Capca1|100333|e_gw1.995.5.1                       ......................------VHLKN...GSN...EH
jgi|Capca1|100333|e_gw1.995.5.1                       ......................------VHLKN...GST...EH
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    ....................ia--------LVN...GTK...IG
jgi|Capca1|153473|estExt_Genewise1.C_5350050          ......................------MRLVN...GDR...VG
jgi|Capca1|123144|e_gw1.3716.1.1                      .....................a--------LVN...GTK...IG
jgi|Capca1|153461|estExt_Genewise1.C_5350011          .....................q-----DVRLVN...GDE...S-
jgi|Capca1|142796|e_gw1.429.17.1                      .....................g-----SLRLTG...GAM...ET
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      ....................pa----SEVRLVG...GSN...RF
jgi|Capca1|74318|gw1.8173.3.1                         ...................red----GFLRLVN...GAS...EN
jgi|Capca1|38641|gw1.535.8.1                          ......................------IRLAN...GFE...SC
jgi|Capca1|90963|e_gw1.4369.5.1                       ......................----------D...GSN...EH
jgi|Capca1|171985|estExt_Genewise1Plus.C_5350035      ....................pn----VTLRLVS...STSeerPN
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    .....................f-----GVRLAD...GES...DD
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ....................dd----PTVRLVD...GQTsdiST
jgi|Capca1|42946|gw1.216.27.1                         .....................d---LVPLRLEG...GSH...PG
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    ....................pn----VTLRLVS...STSeerPN
jgi|Capca1|42946|gw1.216.27.1                         ......................------LRLVG...GLG...PY
jgi|Capca1|97722|e_gw1.517.15.1                       .....................e------VKVFH...GRS...AN
jgi|Capca1|195251|fgenesh1_pg.C_scaffold_535000007    .....................r-----PVRLVN...GNS...EN
jgi|Capca1|42946|gw1.216.27.1                         .....................i------VRLVG...GPS...AQ
jgi|Capca1|195251|fgenesh1_pg.C_scaffold_535000007    .....................e---PVEVRLVD...GND...EH
jgi|Capca1|42946|gw1.216.27.1                         .....................p---SLSLRLQD...GPN...AM
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      .....................g-----EVRLAD...GGS...ES
jgi|Capca1|123144|e_gw1.3716.1.1                      ......................-----------...---...--
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      .....................e---RVTLRLVD...GAL...RG
jgi|Capca1|113791|e_gw1.316.44.1                      ....................ps----TDIRLVD...GPN...DA
jgi|Capca1|145609|e_gw1.28.109.1                      .....................g-----------...---...--
jgi|Capca1|173832|estExt_Genewise1Plus.C_4370011      .....................g-----------...---...--
jgi|Capca1|173836|estExt_Genewise1Plus.C_4370015      .....................g-----------...---...--
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      ......................-----DIRLLN...GRS...PN
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ....................cd----LEVRLSG...GDN...--
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      .....................y-----PVRLLD...GVF...KN
jgi|Capca1|96031|e_gw1.324.68.1                       .....................f-----AVRLVE...GQA...SH
jgi|Capca1|142796|e_gw1.429.17.1                      .....................m-----PIRLRG...GRN...ED
jgi|Capca1|171985|estExt_Genewise1Plus.C_5350035      ......................-----------...---...--
jgi|Capca1|137294|e_gw1.769.33.1                      ......................------VRLTG...GPD...AS
jgi|Capca1|148616|estExt_Genewise1.C_11240004         .....................v-----TLRLAN...GTR...-T
jgi|Capca1|42946|gw1.216.27.1                         .....................v-----KLRLSG...GPS...PR
jgi|Capca1|168778|estExt_Genewise1Plus.C_1680016      ....................gd----TSLRLVG...GPT...CN
jgi|Capca1|206337|fgenesh1_pg.C_scaffold_18811000001  .....................g------LRLAG...GSE...-N
jgi|Capca1|141041|e_gw1.252.73.1                      ......................------LRLVG...GSQ...N-
jgi|Capca1|133022|e_gw1.3419.6.1                      ...................ars---------YN...GYS...GF
jgi|Capca1|116377|e_gw1.214.24.1                      .....................n-----------...---...--
jgi|Capca1|81759|gw1.45878.3.1                        .....................t-----------...---...RT
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ......................CSDDVQMRLVD...GEH...QG
jgi|Capca1|153473|estExt_Genewise1.C_5350050          ....................ig-----EMRLVG...GDG...DH
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ....................ni-----EVRLTGgsqDDN...SM
jgi|Capca1|107246|e_gw1.149.38.1                      ......................------LRLVG...GPT...CN
jgi|Capca1|172188|estExt_Genewise1Plus.C_90003        .....................s-----ELRLAG...GTS...R-
jgi|Capca1|140453|e_gw1.12272.1.1                     ......................-----------...---...--
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         .....................t-----SVRLAD...GPS...QY
jgi|Capca1|226306|estExt_fgenesh1_pg.C_3460010        .....................s-----ELRLAG...GTS...R-
jgi|Capca1|184961|fgenesh1_pg.C_scaffold_294000020    ....................sl-----GLRLAD...GSE...N-
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ......................CGDDVQMRLID...GGA...E-
jgi|Capca1|118585|e_gw1.201.53.1                      ...................skr-----------...---...-D
jgi|Capca1|123226|e_gw1.2096.3.1                      ......................-----------...---...--
jgi|Capca1|98516|e_gw1.341.16.1                       ......................------LRLTG...GST...SN
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        .....................n---HTSVRLAD...GAD...EF
jgi|Capca1|104431|e_gw1.131.94.1                      ......................------LRLVG...DTS...N-
jgi|Capca1|110177|e_gw1.313.52.1                      ....................sg------LRLAG...GSE...N-
jgi|Capca1|219569|estExt_fgenesh1_pg.C_310036         ...................gng-----------...---...-T
jgi|Capca1|134605|e_gw1.62.120.1                      ....................rl---------AG...-GT...CN
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      ....................eg-----EIRLVG...GVL...AG
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         ....................in-----GLRLVD...GSG...TV
jgi|Capca1|198525|fgenesh1_pg.C_scaffold_437000011    ....................eg-----EMRLTN...TGM...VD
jgi|Capca1|112577|e_gw1.437.4.1                       ......................-----DIRLRD...DNG...WG
jgi|Capca1|172188|estExt_Genewise1Plus.C_90003        ....................sr------LRLTS...STS...SN
jgi|Capca1|42946|gw1.216.27.1                         .....................t-----PLRLHG...GAT...EA
jgi|Capca1|98516|e_gw1.341.16.1                       ....................tr------LRLIG...STS...N-
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ......................CGDDVQMRLID...GRA...EG
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      .....................g-----SYRLVD...GPH...SA
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      ....................el-----------...---...--
jgi|Capca1|41913|gw1.31440.1.1                        ......................------VRLVN...GAN...ER
jgi|Capca1|217480|fgenesh1_pg.C_scaffold_28000033     ....................eg-----SMRLKD...DNG...FG
jgi|Capca1|124945|e_gw1.6275.2.1                      .....................v-------YLKN...GSN...EH
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        .....................k-----DIRLVD...EWS...VA
jgi|Capca1|123144|e_gw1.3716.1.1                      .....................f-----GVRLAD...GES...DD
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        .....................g----MQVRLIG...GET...DH
jgi|Capca1|135691|e_gw1.1781.3.1                      ......................-----------...---...--
jgi|Capca1|74318|gw1.8173.3.1                         .....................y-----------...---...--
jgi|Capca1|74318|gw1.8173.3.1                         ...................ygf------LRLVN...GAS...EN
jgi|Capca1|127788|e_gw1.46501.2.1                     ......................-----------...---...--
jgi|Capca1|127788|e_gw1.46501.2.1                     ......................------VQLKN...GSN...EH
jgi|Capca1|186518|fgenesh1_pg.C_scaffold_160000025    ...................evc-----------...---...--
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         ...................ala--------MVS...DGN...DI
jgi|Capca1|222886|estExt_fgenesh1_pg.C_3340010        yghqqikgkisvmwknestste-----------...---...--
jgi|Capca1|222489|estExt_fgenesh1_pg.C_5010017        .....................f-----------...---...--
jgi|Capca1|192037|fgenesh1_pg.C_scaffold_77000052     .....................m--------LLN...NAS...DL
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      .....................l-----------...---...--
jgi|Capca1|220759|estExt_fgenesh1_pg.C_360055         .....................k-----------...GHS...PN
jgi|Capca1|203430|fgenesh1_pg.C_scaffold_13000104     .....................m--------LLD...DAS...DL
jgi|Capca1|222881|estExt_fgenesh1_pg.C_3340003        ....................se-----------...---...--
jgi|Capca1|104785|e_gw1.193.77.1                      .....................f-----------...---...--


                                                                   20             30          40    
                                                                    |              |           |    
d1by2a_                                                 ......Q...GRVEIFYR.....GQWGTVCDNL..WDLTDASVV
jgi|Capca1|101300|e_gw1.789.21.1                      ......E...GRVEIFHE.....GQWGTICDDG..FGQEEADVI
jgi|Capca1|74318|gw1.8173.3.1                         ......E...GRVEIAHA.....GQWGTICDDH..FGKQEADVI
jgi|Capca1|81691|gw1.25671.2.1                        ......E...GRVEIFHN.....GQWGTICDDS..FGHEAASVV
jgi|Capca1|153461|estExt_Genewise1.C_5350011          ......E...GRVEIFHN.....GQWGTICDDS..FGHEAASVV
jgi|Capca1|113791|e_gw1.316.44.1                      ......E...GRVEILYD.....GTWGTICDDG..WDVQDAAVI
jgi|Capca1|153473|estExt_Genewise1.C_5350050          ......E...GRVEILHD.....GEWGTICDDE..FNLEEAQVV
jgi|Capca1|136968|e_gw1.2930.2.1                      ......E...GRVEIAHA.....GQWGTICDDG..FGVKEADVI
jgi|Capca1|153461|estExt_Genewise1.C_5350011          ......E...GRVEIFHS.....EEWGTICDDE..FGPEETRVV
jgi|Capca1|143594|e_gw1.410.20.1                      ......E...GRVEVKKG.....TSWGTVCDDG..WEDVDARVV
jgi|Capca1|105240|e_gw1.9104.2.1                      ......Q...GRLEVFYS.....GQWGTVCDDG..FGSEEALVT
jgi|Capca1|106371|e_gw1.2996.3.1                      ......E...GRVEIAHA.....GQWGTVCDDG..FGVEEADVI
jgi|Capca1|135691|e_gw1.1781.3.1                      ......Q...GRIEMFHS.....GEWGTVCDDG..FGLQAALVV
jgi|Capca1|100333|e_gw1.995.5.1                       ......E...GRVEIAHA.....GQWGTVCDDG..FGVEEADVI
jgi|Capca1|74318|gw1.8173.3.1                         ......E...GRVEVYHS.....GEWGTICDVG..FGEDEADVI
jgi|Capca1|87486|gw1.40.212.1                         ......Q...GRLEVFYS.....GQWGTVCDDG..FGSEEALVT
jgi|Capca1|79363|gw1.535.50.1                         ......E...GRVEIFHD.....GEWGTVCDDN..FDEHTASVV
jgi|Capca1|142319|e_gw1.9403.1.1                      ......E...GRVEIAHA.....GQWGTICDDE..FGVEEADVI
jgi|Capca1|100333|e_gw1.995.5.1                       ......E...GRVEIAHA.....GQWGTVCDDG..FGVEEADVI
jgi|Capca1|100333|e_gw1.995.5.1                       ......E...GRVEIAHA.....GQWGTVCDDG..FGVEEADVI
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    ......E...GRVEIFHD.....GEWGTVCDDN..FDEHTASVV
jgi|Capca1|153473|estExt_Genewise1.C_5350050          ......E...GRVEVMYN.....GAWGTVCDDT..FGEKEALVV
jgi|Capca1|123144|e_gw1.3716.1.1                      ......E...GRVEIFHD.....GEWGTVCDDN..FDEHTASVV
jgi|Capca1|153461|estExt_Genewise1.C_5350011          ......R...GTVEVLHD.....GAWGTVCDDT..FGVEEATVV
jgi|Capca1|142796|e_gw1.429.17.1                      ......T...GNVMVFYQ.....GKWGIVCDDG..WSLRAADVV
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      ......E...GRLEVYYA.....QQWGTVCDDE..FDDIDAGVF
jgi|Capca1|74318|gw1.8173.3.1                         ......E...GRIEIFHS.....NQWGTICSKS..FGQEEADVL
jgi|Capca1|38641|gw1.535.8.1                          ......KgrcGTVEVFHD.....GAWGTVCDDS..FGVEEATVV
jgi|Capca1|90963|e_gw1.4369.5.1                       ......E...GRVEIAHA.....GQWGTVCDDG..FGVEEADVI
jgi|Capca1|171985|estExt_Genewise1Plus.C_5350035      ......R...GRVEIFHG.....SEWGTVCDDM..AGVEAAMVI
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    ......I...GRLEVRHN.....GEWGTVCNDG..FGEQEAEVV
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ......S...GRLEILHN.....GQWGTVCDDY..FGPNSARVF
jgi|Capca1|42946|gw1.216.27.1                         ......E...GRVEVFFQ.....GVWGTICNED..FDDEDAQVV
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    ......R...GRVEVFHG.....SEWGTVCDDI..AGVEAAMVI
jgi|Capca1|42946|gw1.216.27.1                         ......E...GRVEVLNK.....GQWGTICDDG..WSDLDASVV
jgi|Capca1|97722|e_gw1.517.15.1                       ......E...GLVMVRPPr....GQWGTVCDDG..WDDADATVV
jgi|Capca1|195251|fgenesh1_pg.C_scaffold_535000007    ......Q...GRIEMFHS.....GEWGTVXDDG..FGLQAALVV
jgi|Capca1|42946|gw1.216.27.1                         ......E...GRLEVLYR.....GAWGTVCDDD..FDALDAAVF
jgi|Capca1|195251|fgenesh1_pg.C_scaffold_535000007    ......E...GRVEIFYD.....GQWGTICDDG..FDKKKQL--
jgi|Capca1|42946|gw1.216.27.1                         ......E...GRVEVLYN.....GTWGTVCDDD..FGDEDASVV
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      ......E...GRVEVFHD.....GLWGTVCYGT..FNQKAALIV
jgi|Capca1|123144|e_gw1.3716.1.1                      ......-...GRVEVFHG.....SEWGTVCDDM..AGVEAAMVI
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      ......F...GRLEVFYD.....GQWGTVCDDG..FTNNEAKVF
jgi|Capca1|113791|e_gw1.316.44.1                      ......A...GRVQVRDK.....NRWYAVCDDF..WDLNDAAVV
jgi|Capca1|145609|e_gw1.28.109.1                      ......-...GYVKVYYQ.....GSYHTVCDDD..WDDNDARVV
jgi|Capca1|173832|estExt_Genewise1Plus.C_4370011      ......-...GYVKVYYQ.....GSYHTVCDDE..WDDNDARVV
jgi|Capca1|173836|estExt_Genewise1Plus.C_4370015      ......-...GYVKVYYQ.....GSYHTVCDDE..WDDNDARVV
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      ......E...GVLQVLHD.....GTWGTVCDDG..FDSSVASLF
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ......-...GLLQVRYR.....GVWGTVCDDF..FGYSDALVF
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      ......E...GRVEIFLN.....LEWGTMCGEG..FTDLEANVV
jgi|Capca1|96031|e_gw1.324.68.1                       ......M...GRLEVLYD.....GVWGTVCGWT..FGKAEAMVA
jgi|Capca1|142796|e_gw1.429.17.1                      ......E...GRVEVRVQ.....GHWGAICGDH..WTLLEATVV
jgi|Capca1|171985|estExt_Genewise1Plus.C_5350035      ......-...-RLEVWHN.....SEWGTVCDDS..FTENSAMVA
jgi|Capca1|137294|e_gw1.769.33.1                      ......Q...GRVEVQHE.....AQWGSVCSRR..FGIKEGIVI
jgi|Capca1|148616|estExt_Genewise1.C_11240004         ......R...GRLEVFYA.....GRWGTVCDDD..FTDASAAVI
jgi|Capca1|42946|gw1.216.27.1                         ......V...GRLEIFYN.....GTWGSVCEDG..FRDREAVVA
jgi|Capca1|168778|estExt_Genewise1Plus.C_1680016      ......K...GRLEVLHD.....DIWGTVCDDY..FSDNDAALF
jgi|Capca1|206337|fgenesh1_pg.C_scaffold_18811000001  ......R...GRLEVYHN.....GEWRTVCDDA..FSNADAAVF
jgi|Capca1|141041|e_gw1.252.73.1                      ......R...GRLEVIHD.....GRWGTVCDDD..FSNADAAVF
jgi|Capca1|133022|e_gw1.3419.6.1                      ......G...GVLEVYSN.....GTWGTVCDDG..FMDPSARVA
jgi|Capca1|116377|e_gw1.214.24.1                      ......R...GRLEVYYN.....GQWGTVCDDD..FSNADARAF
jgi|Capca1|81759|gw1.45878.3.1                        ......R...GRLEVFYA.....GQWGTVCDDG..FTDASAAVI
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ......E...GHLQVLRA.....GVWGTVCDDD..FNDNTGEAL
jgi|Capca1|153473|estExt_Genewise1.C_5350050          ......E...GRVEIFYW.....E-WGTVCDDN..FDAKAATVV
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ......S...GLLEVSYC.....GRWGTVCDDA..FSEVDARVF
jgi|Capca1|107246|e_gw1.149.38.1                      ......K...GRLEVLHD.....DIWGTVCNDY..FSDNDAALF
jgi|Capca1|172188|estExt_Genewise1Plus.C_90003        ......R...GRLEVYHA.....GEWGTVCDDD..FTDEYAAVI
jgi|Capca1|140453|e_gw1.12272.1.1                     ......-...GRLEVFYA.....GRWGTVCDDD..FTDASAAVI
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         ......V...GRVEIYHS.....GSYGTVCDDD..IDTNMAIMF
jgi|Capca1|226306|estExt_fgenesh1_pg.C_3460010        ......T...GRLEVYHA.....GEWGTVCDDD..FTDEYAAVI
jgi|Capca1|184961|fgenesh1_pg.C_scaffold_294000020    ......R...GRLEVYHN.....GEWGTVCDDA..FLNADAAVF
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ......E...GVLQVLYA.....GVWGTVCDDG..FSHLTGKSI
jgi|Capca1|118585|e_gw1.201.53.1                      ......R...GRLEIWHD.....GEWGTVCDDS..FSDAEASVF
jgi|Capca1|123226|e_gw1.2096.3.1                      ......-...GRLEVLFA.....GQWGTVCDDG..FTDASAAVI
jgi|Capca1|98516|e_gw1.341.16.1                       ......I...GRLEVFHR.....GEWGTVCDDD..FTDEAAAVF
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        ......E...GRLEVRPEge...DEWGTVCGKG..WTIVNSAVV
jgi|Capca1|104431|e_gw1.131.94.1                      ......R...GRLEVFRF.....GQWGTVCDDG..FSNADAALF
jgi|Capca1|110177|e_gw1.313.52.1                      ......R...GRLEVYHN.....GEWRTVCDDA..FSNADAAVF
jgi|Capca1|219569|estExt_fgenesh1_pg.C_310036         ......R...GRLEVFYG.....EEWGTVCDDD..FTDAFAAII
jgi|Capca1|134605|e_gw1.62.120.1                      ......R...GRLEVLHA.....SQWGTVCDKH..FSNADAAVF
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      ......D...GRVEIFHH.....GTWGTLCSDV..FNDDIASEI
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         lpwgtlD...GYLQIQWV.....EDWGTVCDDS..FSYSEAEFF
jgi|Capca1|198525|fgenesh1_pg.C_scaffold_437000011    ......S...GRLEVFRF.....GVWGTVCG-Y..LEPTAANVA
jgi|Capca1|112577|e_gw1.437.4.1                       ......R...GRLEVFRS.....GFWGTVCG-P..LEPSAADVA
jgi|Capca1|172188|estExt_Genewise1Plus.C_90003        ......I...GRLEVFHE.....GNWGAVCDDD..FTNEAAAVF
jgi|Capca1|42946|gw1.216.27.1                         ......D...GWLEIYHD.....GRWGRICGD-..FGTRGAQVA
jgi|Capca1|98516|e_gw1.341.16.1                       ......I...GRLEVFHR.....GEWRTVCGDD..FTDEAAAVF
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         ......E...GYFQVLRA.....GVWGFVCDDG..INDVTGEAL
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      ......E...GKVEVFHE.....STWKAAC---..MTHVIIERI
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      ......A...GRVEILMN.....GEWGTICDHP..FNIEEATAV
jgi|Capca1|41913|gw1.31440.1.1                        ......E...GRVEIAHA.....GQWGTICDDD..FGKQEADVI
jgi|Capca1|217480|fgenesh1_pg.C_scaffold_28000033     ......H...GRLEVLKY.....GVWGTVCG-P..LSDSAKPVI
jgi|Capca1|124945|e_gw1.6275.2.1                      ......E...GRVEIAHA.....GQWGTICDDG..FGVEEADVI
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        ......F...GRLQLLYK.....GKWRGVCANSvnWTQEAVDVA
jgi|Capca1|123144|e_gw1.3716.1.1                      ......I...GRLEVRHN.....GEWGTVCDDG..FGEQEAEVV
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        ......D...GWIEIYNSte...RRWAMMCDDS..FNDRTAEVA
jgi|Capca1|135691|e_gw1.1781.3.1                      ......-...--------.....----------..---------
jgi|Capca1|74318|gw1.8173.3.1                         ......-...--------.....----------..---------
jgi|Capca1|74318|gw1.8173.3.1                         ......E...GRIEIFHS.....SQWGTICSKS..FGQEEADVL
jgi|Capca1|127788|e_gw1.46501.2.1                     ......-...--------.....----------..---------
jgi|Capca1|127788|e_gw1.46501.2.1                     ......E...GRVEIAHA.....GQWGPICDDG..FGGEETDVI
jgi|Capca1|186518|fgenesh1_pg.C_scaffold_160000025    ......-...GYLQVDTG.....SGWCTVCNYG..LSEEILSVL
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         ......Y...GPPHILLS.....GSYGWICDDGn.FDDEVAKVI
jgi|Capca1|222886|estExt_fgenesh1_pg.C_3340010        ......-...--------.....--AIYFCDDEm.FDHNAGNVV
jgi|Capca1|222489|estExt_fgenesh1_pg.C_5010017        ......-...--------.....------CDDEv.FNQSAANVI
jgi|Capca1|192037|fgenesh1_pg.C_scaffold_77000052     ......E...GKISVIWRnattsTGAICFCDDGv.FDLSAGNVV
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      ......A...GRVEILMN.....GEWGTICDHP..FNIEEATAV
jgi|Capca1|220759|estExt_fgenesh1_pg.C_360055         ......R...GQLEVLHN.....GTRHNVCPYN..FTTTEAVVF
jgi|Capca1|203430|fgenesh1_pg.C_scaffold_13000104     ......E...GKISVIWRnattsTGAICFCDDGv.FDLSAGNVV
jgi|Capca1|222881|estExt_fgenesh1_pg.C_3340003        ......-...--------.....--FTFICDDGi.FSHAAVDVI
jgi|Capca1|104785|e_gw1.193.77.1                      ......-...------IP.....GVWSAICSPS..WSVNEATVV


                                                             50                                  60 
                                                              |                                   | 
d1by2a_                                                 CR.ALGF.......ENAT...............QAL...G.RAA
jgi|Capca1|101300|e_gw1.789.21.1                      CR.SLGY.......SGGV...............A-I...G.KAH
jgi|Capca1|74318|gw1.8173.3.1                         CK.SFGY.......SDGV...............VV-...-.-AR
jgi|Capca1|81691|gw1.25671.2.1                        CR.SLGY.......SDGQ...............YYK...G.--Y
jgi|Capca1|153461|estExt_Genewise1.C_5350011          CR.SLGY.......SDGQ...............YYK...G.--Y
jgi|Capca1|113791|e_gw1.316.44.1                      CA.MVGFs......GLAR...............AFT...Q.ASP
jgi|Capca1|153473|estExt_Genewise1.C_5350050          CR.SLGF.......SNG-...............DWR...T.DAF
jgi|Capca1|136968|e_gw1.2930.2.1                      CR.SLGY.......VGGI...............-PT...G.SEQ
jgi|Capca1|153461|estExt_Genewise1.C_5350011          CR.SMGF.......YGGY...............H-Y...G.NAH
jgi|Capca1|143594|e_gw1.410.20.1                      CR.QLGF.......DDGY...............AVY...P.P-T
jgi|Capca1|105240|e_gw1.9104.2.1                      CR.SLGY.......TGGV...............VIT...K.S-K
jgi|Capca1|106371|e_gw1.2996.3.1                      CK.SLGY.......VYVL...............AA-...-.-RQ
jgi|Capca1|135691|e_gw1.1781.3.1                      CR.SMGY.......NHGY...............H-Y...G.DAR
jgi|Capca1|100333|e_gw1.995.5.1                       CR.SLGY.......VGGI...............-PT...G.SEQ
jgi|Capca1|74318|gw1.8173.3.1                         CR.SLGY.......SDGV...............SYQ...-.SAH
jgi|Capca1|87486|gw1.40.212.1                         CR.SLGY.......TGGV...............VIT...K.S-K
jgi|Capca1|79363|gw1.535.50.1                         CR.SLGY.......YGGKlits...........FHY...Q.YLT
jgi|Capca1|142319|e_gw1.9403.1.1                      CR.SLGY.......VSGL...............P-T...G.SEQ
jgi|Capca1|100333|e_gw1.995.5.1                       CK.SLGY.......AGGI...............PT-...G.SEQ
jgi|Capca1|100333|e_gw1.995.5.1                       CR.SLGY.......VGGI...............-PT...G.SEQ
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    CR.SLGY.......YDG-...............WAR...R.EAY
jgi|Capca1|153473|estExt_Genewise1.C_5350050          CK.SLGY.......ESGE...............IAS...F.-NH
jgi|Capca1|123144|e_gw1.3716.1.1                      CR.SLGY.......YDG-...............WAR...R.EAY
jgi|Capca1|153461|estExt_Genewise1.C_5350011          CK.ALGF.......EYGT...............Y-Q...N.EAY
jgi|Capca1|142796|e_gw1.429.17.1                      CR.SLGY.......LRAL...............GHT...D.QAY
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      CR.MLGY.......GCGV...............YLM...-.---
jgi|Capca1|74318|gw1.8173.3.1                         CR.SFGYyylyvslNSGS...............VPY...Q.LLH
jgi|Capca1|38641|gw1.535.8.1                          CK.ALGF.......EYGT...............Y-Q...N.EAY
jgi|Capca1|90963|e_gw1.4369.5.1                       CR.SLGY.......VG-G...............FPS...G.SEQ
jgi|Capca1|171985|estExt_Genewise1Plus.C_5350035      CR.YLGF.......TTGT...............PRP...-.GAY
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    CR.SLGF.......SGGS...............ILPfhrI.YLE
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         CK.MLGF.......EGTA...............MFL...G.N-T
jgi|Capca1|42946|gw1.216.27.1                         CR.SLGL.......SVSEa..............REL...T.FSN
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    CR.YLGF.......TTGT...............PRP...-.GAY
jgi|Capca1|42946|gw1.216.27.1                         CK.QLNY.......T---...............---...-.RAF
jgi|Capca1|97722|e_gw1.517.15.1                       CR.ELGF.......RAGY...............ARF...-.YPY
jgi|Capca1|195251|fgenesh1_pg.C_scaffold_535000007    CR.SMGY.......NHGY...............H-Y...G.DAR
jgi|Capca1|42946|gw1.216.27.1                         CR.MLGFn......GTAR...............YME...Q.AYG
jgi|Capca1|195251|fgenesh1_pg.C_scaffold_535000007    --.----.......-FRA...............MPH...H.GGH
jgi|Capca1|42946|gw1.216.27.1                         CS.MLGY.......IFGG...............EPL...G.SLY
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      CR.ALGY.......AGGH...............SVA...F.GAF
jgi|Capca1|123144|e_gw1.3716.1.1                      CR.YLGF.......TTGT...............PRP...-.GAY
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      CS.ALGY.......RDGS...............--P...S.RIQ
jgi|Capca1|113791|e_gw1.316.44.1                      CR.MLCY.......NPINa..............RAH...I.GGA
jgi|Capca1|145609|e_gw1.28.109.1                      CR.NLGF.......SDGV...............AVC...C.A-A
jgi|Capca1|173832|estExt_Genewise1Plus.C_4370011      CR.NLGF.......SDGV...............AVC...C.A-A
jgi|Capca1|173836|estExt_Genewise1Plus.C_4370015      CR.NLGF.......SDGV...............AVC...C.A-A
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      CQ.LFGF.......SSGE...............ALLe..P.DER
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         CK.MLGY.......KTGA...............EDH...G.--Y
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      CR.MLGY.......GRGI...............SLG...-.-NQ
jgi|Capca1|96031|e_gw1.324.68.1                       CR.SMGY.......DDGQ...............LLP...L.GAP
jgi|Capca1|142796|e_gw1.429.17.1                      CK.QVGK.......GHAR...............SAV...M.SSV
jgi|Capca1|171985|estExt_Genewise1Plus.C_5350035      CK.QLGY.......SEGY...............TIE...-.SAE
jgi|Capca1|137294|e_gw1.769.33.1                      CR.KLGY.......SYAE...............FIR...N.VTR
jgi|Capca1|148616|estExt_Genewise1.C_11240004         CQ.SLGL.......PSLN...............AS-...E.IHG
jgi|Capca1|42946|gw1.216.27.1                         CR.SLGF.......ELAE...............VSY...G.RNW
jgi|Capca1|168778|estExt_Genewise1Plus.C_1680016      CR.AMGK.......PYG-...............NAE...A.IAT
jgi|Capca1|206337|fgenesh1_pg.C_scaffold_18811000001  CR.SMGK.......PYE-...............NAE...A.IAS
jgi|Capca1|141041|e_gw1.252.73.1                      CR.SMGK.......PYAN...............A-R...A.IAR
jgi|Capca1|133022|e_gw1.3419.6.1                      CR.SFGY.......NHGV...............AVC...C.-AA
jgi|Capca1|116377|e_gw1.214.24.1                      CR.SMGK.......PYAR...............AEA...I.-QE
jgi|Capca1|81759|gw1.45878.3.1                        CR.SMGL.......PSLH...............AT-...A.FHV
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         CR.MLGY.......SQYS...............GYT...S.RYN
jgi|Capca1|153473|estExt_Genewise1.C_5350050          CK.YFGY.......KRGH...............PVS...-.-NK
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         CT.MLGY.......TGTA...............R--...-.-VH
jgi|Capca1|107246|e_gw1.149.38.1                      CR.AMGK.......PYG-...............NAE...A.IAT
jgi|Capca1|172188|estExt_Genewise1Plus.C_90003        CK.SLGL.......PFGN...............ARE...I.HNF
jgi|Capca1|140453|e_gw1.12272.1.1                     CR.SLGL.......PSLH...............ATE...-.IHG
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         CN.MMGF.......NGGS...............--V...R.GNT
jgi|Capca1|226306|estExt_fgenesh1_pg.C_3460010        CK.SLGL.......PFGN...............ARE...I.HNY
jgi|Capca1|184961|fgenesh1_pg.C_scaffold_294000020    CR.SMEK.......PYE-...............NAE...A.IAS
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         CR.MMGF.......SSYV...............GFR...S.GHF
jgi|Capca1|118585|e_gw1.201.53.1                      CR.SMGK.......PYAH...............AEA...-.ISA
jgi|Capca1|123226|e_gw1.2096.3.1                      CR.SLDL.......PSL-...............HAT...G.IHN
jgi|Capca1|98516|e_gw1.341.16.1                       CK.TLGL.......PYAN...............ADA...L.GNY
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        CQ.MLGMvv.....HPDD...............WLV...Y.ANV
jgi|Capca1|104431|e_gw1.131.94.1                      CR.AMEN.......PYAN...............AEA...-.IEE
jgi|Capca1|110177|e_gw1.313.52.1                      CR.SMGT.......PYEN...............-AE...A.IAS
jgi|Capca1|219569|estExt_fgenesh1_pg.C_310036         CK.YLGL.......PYAN...............AVE...I.HNF
jgi|Capca1|134605|e_gw1.62.120.1                      CR.SMGK.......PHAN...............AEA...-.IMQ
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      CR.ARGW.......RYGF...............-AK...F.DAH
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         CR.ALGF.......DRGT...............VGW...-.SSS
jgi|Capca1|198525|fgenesh1_pg.C_scaffold_437000011    CR.QFGY.......SRGE...............QLP...E.ELY
jgi|Capca1|112577|e_gw1.437.4.1                       CR.QIGYdr.....GETV...............EWD...P.MNP
jgi|Capca1|172188|estExt_Genewise1Plus.C_90003        CK.SLGL.......PYAN...............AAA...I.PTY
jgi|Capca1|42946|gw1.216.27.1                         CN.SLGLs......GNAL...............VVK...D.KES
jgi|Capca1|98516|e_gw1.341.16.1                       CK.ALGL.......PYSN...............ATA...I.LNF
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         CR.MLGY.......SQYSg..............FTS...R.YTV
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      CQ.QLGYl......SGKI...............LLD...P.TEK
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      CT.TLGF.......THGL...............YMN...N.L-E
jgi|Capca1|41913|gw1.31440.1.1                        CR.SLGY.......RYV-...............---...-.---
jgi|Capca1|217480|fgenesh1_pg.C_scaffold_28000033     AR.QLGF.......QSCE...............QYF...RdGAV
jgi|Capca1|124945|e_gw1.6275.2.1                      CR.SLGY.......V---...............---...-.---
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        CK.QLGF.......NNGT...............FSF...V.SW-
jgi|Capca1|123144|e_gw1.3716.1.1                      CR.SLGF.......----...............---...-.---
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        CK.TMGK.......EYSN...............VLV...T.THR
jgi|Capca1|135691|e_gw1.1781.3.1                      --.----.......----...............---...-.-AY
jgi|Capca1|74318|gw1.8173.3.1                         --.----.......----...............---...Q.SAH
jgi|Capca1|74318|gw1.8173.3.1                         CR.SFGY.......----...............---...-.---
jgi|Capca1|127788|e_gw1.46501.2.1                     --.----.......----...............---...-.---
jgi|Capca1|127788|e_gw1.46501.2.1                     CR.SL--.......----...............---...-.---
jgi|Capca1|186518|fgenesh1_pg.C_scaffold_160000025    CR.QMGY.......GSFL...............QWS...T.EKR
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         CEkDFGY.......NDGQ...............KYI...Y.EGS
jgi|Capca1|222886|estExt_fgenesh1_pg.C_3340010        CR.ELEY.......DEAH...............LQP...S.V--
jgi|Capca1|222489|estExt_fgenesh1_pg.C_5010017        CG.ELKY.......DSAY...............IQP...S.IAS
jgi|Capca1|192037|fgenesh1_pg.C_scaffold_77000052     CR.ELEY.......DEAH...............LQP...S.V--
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      CT.TLGF.......----...............---...-.---
jgi|Capca1|220759|estExt_fgenesh1_pg.C_360055         CR.SLGL.......PHENaeisdadetsnleglLSA...I.GQF
jgi|Capca1|203430|fgenesh1_pg.C_scaffold_13000104     CR.ELEY.......DEAD...............LQP...S.V--
jgi|Capca1|222881|estExt_fgenesh1_pg.C_3340003        CQ.EIGF.......SGGT...............GEP...A.V--
jgi|Capca1|104785|e_gw1.193.77.1                      CK.SRHF.......GEPL...............LVN...-.---


                                                                           70         80          90
                                                                            |          |           |
d1by2a_                                                 FGQGSG............PIMLD.EVQCTGTEASLADCKS..LG
jgi|Capca1|101300|e_gw1.789.21.1                      FGEGVG............PIWLD.DVACTGNEDSVEQCIH..PG
jgi|Capca1|74318|gw1.8173.3.1                         FGQGAG............PIWLD.DVACIGNEDSIAQCPH..PA
jgi|Capca1|81691|gw1.25671.2.1                        IGSGRG............NIWLD.DISCSGNEVSIDQCSH..GG
jgi|Capca1|153461|estExt_Genewise1.C_5350011          IGSGRG............NIWLD.DISCSGNEVSIDQCSH..GG
jgi|Capca1|113791|e_gw1.316.44.1                      FGPGSG............PIHLS.QVECDGNEQSISFCSH..AG
jgi|Capca1|153473|estExt_Genewise1.C_5350050          FGAGEG............RIWLD.DFNCDGHEEWIEECNS..VY
jgi|Capca1|136968|e_gw1.2930.2.1                      FGHGVG............RIWLD.NVACVGNEDSIKQCPH..NG
jgi|Capca1|153461|estExt_Genewise1.C_5350011          FGEGSG............NIWLD.GVGCDGDEDSISQCDH..PG
jgi|Capca1|143594|e_gw1.410.20.1                      FPVGSG............MISLA.DVGCSGDEVSLLQCGH..SP
jgi|Capca1|105240|e_gw1.9104.2.1                      YSSGSG............QIWLD.QVICDGDEDSLVQCDH..RD
jgi|Capca1|106371|e_gw1.2996.3.1                      FGYGVG............RIWLN.DVACVGNEDSIEQCSH..NG
jgi|Capca1|135691|e_gw1.1781.3.1                      FGEGSG............NIWLD.GVDCDGDEDSIEQCDH..NE
jgi|Capca1|100333|e_gw1.995.5.1                       FGYGVG............RIWLD.DVACVGNEDSIEQCPH..NG
jgi|Capca1|74318|gw1.8173.3.1                         FGEGVG............RIWLN.DVDCTGDEDSIIQCAH..AN
jgi|Capca1|87486|gw1.40.212.1                         YSSGSG............QIWLD.QVTCDGDEDSLVQCDH..RD
jgi|Capca1|79363|gw1.535.50.1                         IGPGTG............KIWLE.SVSCAGDESSLEDCDH..QG
jgi|Capca1|142319|e_gw1.9403.1.1                      FGYGVG............RIWLD.DVACVGNEDSLEQCRH..RE
jgi|Capca1|100333|e_gw1.995.5.1                       FGYGVG............RIWLD.DVACVGNEDSIEQCPH..SG
jgi|Capca1|100333|e_gw1.995.5.1                       FGYGVG............RIWLD.DVACVGNEDSIEQCPH..NG
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    FGSGKG............VIWLD.GFGCFGTEATLTECQG..IN
jgi|Capca1|153473|estExt_Genewise1.C_5350050          FGSGSG............LILLD.NMQCNGTEESLLECNK..GI
jgi|Capca1|123144|e_gw1.3716.1.1                      FGSGKG............VIWLD.GFGCFGTEATLTECQG..IN
jgi|Capca1|153461|estExt_Genewise1.C_5350011          FGEGSG............EILMD.SIDCDGSEESLTECSH..NG
jgi|Capca1|142796|e_gw1.429.17.1                      FGTPNE............DVFLD.NVRCRGDESSLLECDR..NP
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      SPKEGG............PIWLD.DIGCNGQEDHVSECPK..SS
jgi|Capca1|74318|gw1.8173.3.1                         FGDGSG............PIWLD.GVDCTGNENSIEQCTN..LV
jgi|Capca1|38641|gw1.535.8.1                          FGEGSG............EILMD.SIDCDGSEESLTECSH..NG
jgi|Capca1|90963|e_gw1.4369.5.1                       FGHGVG............RIWLN.DVACVGNEDSIERCLH..NG
jgi|Capca1|171985|estExt_Genewise1Plus.C_5350035      FGAGSG............KIWLD.NLQCQGDEGSLEECYH..HI
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    IGLGSG............KIWLE.WVSCEGDETSLEDCRH..RD
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         FGSGSG............PIWLD.NVQCVGSESTFEECSH..LP
jgi|Capca1|42946|gw1.216.27.1                         IAIGEG............QIWLE.SLDCLGSESNVMQCNH..DG
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    FGAGSG............KIWLD.NLQCQGDEGSLEECYH..HI
jgi|Capca1|42946|gw1.216.27.1                         FGAGSG............PVWMN.NVNCDGIERHLGLCGQteFS
jgi|Capca1|97722|e_gw1.517.15.1                       FGKTNAsl..........PIYID.DMQCVGTEPTLSSCQRq.TG
jgi|Capca1|195251|fgenesh1_pg.C_scaffold_535000007    FGEGSG............NIWLD.GVDCDGDEDSIEQCDH..NE
jgi|Capca1|42946|gw1.216.27.1                         PGDDDS............PVWLD.DMQCKGNETSAEECVF..SG
jgi|Capca1|195251|fgenesh1_pg.C_scaffold_535000007    FGSSRG............NIWLD.GVSCSGNEVSIDQCLH..GV
jgi|Capca1|42946|gw1.216.27.1                         GPANDSv...........PIWLN.EVECEGGESLLTQCAF..LG
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      PQINHG............PIWIG.RLGCHGNESSIMECAL..MN
jgi|Capca1|123144|e_gw1.3716.1.1                      FGAGSG............KIWLD.NLQCQGDEGSLEECYH..HI
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      YGKSTG............PIWMD.DVVCKEAGTSLADCEH..AP
jgi|Capca1|113791|e_gw1.316.44.1                      YGNTTE............EFLLD.DVMCSGDETDLMDCPN..AG
jgi|Capca1|145609|e_gw1.28.109.1                      YGSGYE............AILLD.NVRCTGSEANLAHCAH..NG
jgi|Capca1|173832|estExt_Genewise1Plus.C_4370011      YGSGYE............AILLD.NVRCTGSEANLAHCAH..NG
jgi|Capca1|173836|estExt_Genewise1Plus.C_4370015      YGSGYE............AILLD.NVRCTGSEANLAHCAH..NG
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      FGSGND............VIWMD.DVICSPEARDLNECEF..NG
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         HSGGTG............QIWLD.DLDCTGQESSISDCRH..IG
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      YGPGWD............NIWVD.SLRCHGQEETIIACFG..LV
jgi|Capca1|96031|e_gw1.324.68.1                       NPKSDIg...........PIWLD.GVSCYGDEWALEMCYH..NG
jgi|Capca1|142796|e_gw1.429.17.1                      FGGEHL............AKVLS.GIDCMGEEDSLDECSHarRS
jgi|Capca1|171985|estExt_Genewise1Plus.C_5350035      IEEGSG............QIWLD.EVQCSGEEESIAMCPH..LE
jgi|Capca1|137294|e_gw1.769.33.1                      FGAAPEgq..........IIWLQ.RLSCTGKESDLGGCLSksEH
jgi|Capca1|148616|estExt_Genewise1.C_11240004         FGGGDG............PIYLD.QVTCSGAEDA-RACYH..AG
jgi|Capca1|42946|gw1.216.27.1                         DGQYAPseg.........PVWLDrGLECLGMEQNIALCEH..SG
jgi|Capca1|168778|estExt_Genewise1Plus.C_1680016      FGGGYG............VIHLD.DVRCSGQR-DWRSCSH..NG
jgi|Capca1|206337|fgenesh1_pg.C_scaffold_18811000001  FGGGSG............PIYLD.NVNCDRH-AYASFCTH..RG
jgi|Capca1|141041|e_gw1.252.73.1                      FGGGSG............PIHLD.DVNCDGVQ-DWRFCRH..RG
jgi|Capca1|133022|e_gw1.3419.6.1                      FGWGTD............RILLD.EVSCSGSEQNIGSCVH..NE
jgi|Capca1|116377|e_gw1.214.24.1                      FGGGSG............PIHLD.DVNCDGQQKA-MFCRH..SG
jgi|Capca1|81759|gw1.45878.3.1                        FWEGDG............PIYLE.QVNCSGADDA-RDCQH..AG
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         GNNYQM............PIHLD.SLSCSRSTNYFSECTH..HS
jgi|Capca1|153473|estExt_Genewise1.C_5350050          YGPGEG............RILLD.MFECETGDKTLADCGD..FY
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         DGHGSG............QIWLD.DVQCSPGMTHISECNH..LP
jgi|Capca1|107246|e_gw1.149.38.1                      FGGGYG............VIHLD.DVRCSGQR-DWRSCSH..NG
jgi|Capca1|172188|estExt_Genewise1Plus.C_90003        GGGTGK............PIHLD.QVNCAA-ATHARHCVH..AG
jgi|Capca1|140453|e_gw1.12272.1.1                     FGGGDG............PIHLD.QVNCSGADDA-RACQH..AG
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         YGSGTG............MIWVD.NIYCPTGADDINDCSF..T-
jgi|Capca1|226306|estExt_fgenesh1_pg.C_3460010        GLGMGK............PIHLD.QVNCEGAEH-ARHCTH..AG
jgi|Capca1|184961|fgenesh1_pg.C_scaffold_294000020    FGGGSG............PIYLD.NVNCDGHA-YASFCTH..RG
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         AAGRTS............PILLS.GLYCPTDNDNFAGCSH..YG
jgi|Capca1|118585|e_gw1.201.53.1                      FGGGSG............GIHLD.NVNCDGVQ-DWRSCSH..DG
jgi|Capca1|123226|e_gw1.2096.3.1                      FGGGDG............PIYLD.QVTCSGADDA-RACQH..AG
jgi|Capca1|98516|e_gw1.341.16.1                       GGGYSL............PILLD.QVTCHS-AIDARYCRH..RG
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        PAPNSV............PIWRS.SVDCTVLDMNVLDCNA..DG
jgi|Capca1|104431|e_gw1.131.94.1                      FGGGSG............LILLD.NVDCDGQQD-AKSCRH..QG
jgi|Capca1|110177|e_gw1.313.52.1                      FGGGSG............PIHMD.EVNCDGQQFA-MFCLN..RG
jgi|Capca1|219569|estExt_fgenesh1_pg.C_310036         GGGTGK............PIHLD.QVDCER-APDARYCKH..RG
jgi|Capca1|134605|e_gw1.62.120.1                      FGGGSG............LIHLD.EVNCDGV-LEWKSCRH..SG
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      YGAGSG............PIWYY.DEHCLSDEGTILDCTS..IK
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         NSYITG............TIWLD.DVSCPTDAKSFSQCTH..GG
jgi|Capca1|198525|fgenesh1_pg.C_scaffold_437000011    FVTACDdq..........PIWVK.NFICEGYEQRLMDCGF..AQ
jgi|Capca1|112577|e_gw1.437.4.1                       MACEEQ............AIWMS.GVMCYGYEARLMECRH..AT
jgi|Capca1|172188|estExt_Genewise1Plus.C_90003        GFDYSL............PILLD.QVTCQS-ALDARYCRH..DG
jgi|Capca1|42946|gw1.216.27.1                         TANEKF............PTWLT.DVECSGQESSLLDCEH..PE
jgi|Capca1|98516|e_gw1.341.16.1                       GGGHPF............PILLD.QVTCQSSK-DARYCRH..GG
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         NNNQEG............PIHLD.SLSCSRSTNVFSGCTH..DS
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      YGQGSR............VIWMN.GVSCYGNESTVQDCSY..GE
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      FGQGKG............RVWVM.ADE-LSSGVSVQQCSS..DY
jgi|Capca1|41913|gw1.31440.1.1                        ------............-----.----------------..--
jgi|Capca1|217480|fgenesh1_pg.C_scaffold_28000033     PACEDQ............PVWMA.APTCYGLEAMLIDCPP..VN
jgi|Capca1|124945|e_gw1.6275.2.1                      ------............-----.----------------..--
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        SRNDTD............FMLYH.NPACEGSETNILDCPN..KN
jgi|Capca1|123144|e_gw1.3716.1.1                      ------............-----.----------------..--
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        YYDIYVlgypkmheqvieWFWRR.TFVCDGKESNLEQCRF..KQ
jgi|Capca1|135691|e_gw1.1781.3.1                      FGEGSG............EILMD.SIDCDGSEESLTECSH..NG
jgi|Capca1|74318|gw1.8173.3.1                         FGEGVG............RIWLN.DVDCTGDEDSIIQCAH..AN
jgi|Capca1|74318|gw1.8173.3.1                         ------............-----.----------------..--
jgi|Capca1|127788|e_gw1.46501.2.1                     ------............-IWLD.DVACVGNEDSIERCLH..NG
jgi|Capca1|127788|e_gw1.46501.2.1                     ------............-----.----------------..--
jgi|Capca1|186518|fgenesh1_pg.C_scaffold_160000025    KKTRAE............VFIEI.SAHCSGIEQLITDCR-..--
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         LIPAMG............IMTLN.QVHCEGGESSLSDCNY..NI
jgi|Capca1|222886|estExt_fgenesh1_pg.C_3340010        --AGSG............SWTIH.SVQCDGDEVRLEDCSW..TV
jgi|Capca1|222489|estExt_fgenesh1_pg.C_5010017        NGTGMQ............TI--H.SVRCAGDERQLSNCSW..QV
jgi|Capca1|192037|fgenesh1_pg.C_scaffold_77000052     --DGSG............SWTIH.SVHCDGDEGGLEECSW..TV
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      ------............-----.----------------..--
jgi|Capca1|220759|estExt_fgenesh1_pg.C_360055         ISTFLQ............PRALR.KVNCTGA-SDVWFCRH..SG
jgi|Capca1|203430|fgenesh1_pg.C_scaffold_13000104     --AGNG............SWTIH.SVHCDGDEDGLEDCSW..TV
jgi|Capca1|222881|estExt_fgenesh1_pg.C_3340003        --PGVQ............VNTLQ.EVRCTGYEPMLENCTW..TL
jgi|Capca1|104785|e_gw1.193.77.1                      ------............-----.----------------..--


                                                                        100       110           
                                                                          |         |           
d1by2a_                                                 WLK......SN...CRHERDAGVVCTNETR-----sthtl
jgi|Capca1|101300|e_gw1.789.21.1                      WGK......NN...CWHGEDAGVDCSEY-------qs...
jgi|Capca1|74318|gw1.8173.3.1                         WGT......HD...CSHREDVGVVCSEY-------vf...
jgi|Capca1|81691|gw1.25671.2.1                        WGN......HD...CSHSEDVGVQC----------.....
jgi|Capca1|153461|estExt_Genewise1.C_5350011          WGN......HD...CSHSEDVGVQCSN--------.....
jgi|Capca1|113791|e_gw1.316.44.1                      WDN......NR...CTHAEDAGVSCLG--------vr...
jgi|Capca1|153473|estExt_Genewise1.C_5350050          WGI......NN...CSHNEDAGVSCYN--------g....
jgi|Capca1|136968|e_gw1.2930.2.1                      WEN......HD...CNHAEDAAVICSE--------.....
jgi|Capca1|153461|estExt_Genewise1.C_5350011          WGQ......HD...CSHSEDASVECF---------e....
jgi|Capca1|143594|e_gw1.410.20.1                      GIA......SD...CSHQEDAGARCID--------.....
jgi|Capca1|105240|e_gw1.9104.2.1                      WGS......HD...CSHNEDVGVACGE--------ys...
jgi|Capca1|106371|e_gw1.2996.3.1                      WGN......HD...CTHDEDAGLICSE--------.....
jgi|Capca1|135691|e_gw1.1781.3.1                      WVH......HD...CNHSKDAGVAC----------c....
jgi|Capca1|100333|e_gw1.995.5.1                       WGN......HD...CNHAEDAAVICNG--------v....
jgi|Capca1|74318|gw1.8173.3.1                         WGT......GS...CGHGEDIGVACR---------e....
jgi|Capca1|87486|gw1.40.212.1                         WGS......HD...CSHNEDVGVAC----------.....
jgi|Capca1|79363|gw1.535.50.1                         WGS......HD...CYHREDVAVAC----------.....
jgi|Capca1|142319|e_gw1.9403.1.1                      WGY......YD...CSHMEVAGVICSE--------.....
jgi|Capca1|100333|e_gw1.995.5.1                       WGN......HN...CLHDEDAGLICNG--------v....
jgi|Capca1|100333|e_gw1.995.5.1                       WGN......HD...CTHDKDAGLICSE--------.....
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    FGS......ND...CSHSEDAGVAC----------f....
jgi|Capca1|153473|estExt_Genewise1.C_5350050          IGS......ND...CSHREDVGLSCTG--------eq...
jgi|Capca1|123144|e_gw1.3716.1.1                      FGS......ND...CSHSEDAGVAC----------f....
jgi|Capca1|153461|estExt_Genewise1.C_5350011          WGQ......HD...CSHSEDAGVECSN--------s....
jgi|Capca1|142796|e_gw1.429.17.1                      WHD......HD...CEKSEAAGVFCAP--------l....
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      WGI......TN...CGHTEDVSIRC----------d....
jgi|Capca1|74318|gw1.8173.3.1                         WGT......ND...CGHDEDAGLLCIE--------h....
jgi|Capca1|38641|gw1.535.8.1                          WGQ......HD...CSHSEDAGVEC----------.....
jgi|Capca1|90963|e_gw1.4369.5.1                       WGN......HD...CTHDEDAAVICSE--------.....
jgi|Capca1|171985|estExt_Genewise1Plus.C_5350035      WGE......ND...CDHSEDFGVECID--------ai...
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    WGL......HD...CEHIEDVAVACN---------t....
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         LGS......HN...CGHYEDVSIECF---------t....
jgi|Capca1|42946|gw1.216.27.1                         WGQ......HN...CYHHEDVRVSC----------g....
jgi|Capca1|195254|fgenesh1_pg.C_scaffold_535000010    WGE......ND...CDHSEDFGVECSK--------vk...
jgi|Capca1|42946|gw1.216.27.1                         SSS......HV...CQHDEDAGVTC----------.....
jgi|Capca1|97722|e_gw1.517.15.1                       WRQ......HN...CQHEEDAGVQC----------i....
jgi|Capca1|195251|fgenesh1_pg.C_scaffold_535000007    WVH......HD...CNHSKDA--------------.....
jgi|Capca1|42946|gw1.216.27.1                         LEEi.....VH...CWHSEDVSIACLP--------q....
jgi|Capca1|195251|fgenesh1_pg.C_scaffold_535000007    WGS......HD...YSHTEDAGVTCSN--------g....
jgi|Capca1|42946|gw1.216.27.1                         LDR......GDpe.CNHDQDVSLRCF---------sd...
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      GET......AI...CNHFQDVGVMCH---------te...
jgi|Capca1|123144|e_gw1.3716.1.1                      WGE......ND...CDHSEDFGVECS---------k....
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      FGT......NN...CEHIEDISLQCVG--------y....
jgi|Capca1|113791|e_gw1.316.44.1                      LSN......SD...CDYAEGAGVSCL---------qdt..
jgi|Capca1|145609|e_gw1.28.109.1                      VYN......EN...CSHSEDAGVLCY---------.....
jgi|Capca1|173832|estExt_Genewise1Plus.C_4370011      VYN......EN...CSHSEDAGVLCY---------.....
jgi|Capca1|173836|estExt_Genewise1Plus.C_4370015      VYN......EN...CSHSEDAGVLCY---------.....
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      WGE......VD...CDHSEDVSVRCLG--------er...
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         WGN......HN...CNHGEDVYLRCTNM-------nfh..
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      FGP......GT...CDHDSDVSVRC----------l....
jgi|Capca1|96031|e_gw1.324.68.1                       YGR......VRyd.CTHKWDAWLDCF---------a....
jgi|Capca1|142796|e_gw1.429.17.1                      HDI......AC...PEQDFIAGVVCTHE-------lpd..
jgi|Capca1|171985|estExt_Genewise1Plus.C_5350035      WGN......TD...CVHGEDVEIKCY---------a....
jgi|Capca1|137294|e_gw1.769.33.1                      WAE......TD...CSPAEDAGVICS---------s....
jgi|Capca1|148616|estExt_Genewise1.C_11240004         WGA......HN...CGHHEDLGIDC----------.....
jgi|Capca1|42946|gw1.216.27.1                         WGQ......SN...CDYTGDVILSCLDVT------pt...
jgi|Capca1|168778|estExt_Genewise1Plus.C_1680016      WGL......NN...CGHEEDVGLHC----------.....
jgi|Capca1|206337|fgenesh1_pg.C_scaffold_18811000001  WGV......HD...CGHQEDVGLNC----------.....
jgi|Capca1|141041|e_gw1.252.73.1                      WGV......DN...CNHGEDVGLHC----------.....
jgi|Capca1|133022|e_gw1.3419.6.1                      IGN......HD...CRHNEDAGILC----------.....
jgi|Capca1|116377|e_gw1.214.24.1                      WGV......HN...CHHNEDVGLNC----------.....
jgi|Capca1|81759|gw1.45878.3.1                        WGA......HD...CTHGEDIGIDC----------.....
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         WGS......HD...CNHQEDVYLYC----------d....
jgi|Capca1|153473|estExt_Genewise1.C_5350050          WGL......NN...CNHSEDAGVRC----------.....
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         WGS......HN...CGHYEDVALQCFD--------h....
jgi|Capca1|107246|e_gw1.149.38.1                      WGL......NN...CGHEEDVGLHC----------.....
jgi|Capca1|172188|estExt_Genewise1Plus.C_90003        WGV......NN...CQHGEDLGIHC----------.....
jgi|Capca1|140453|e_gw1.12272.1.1                     WGA......HD...CDHDEDVGIDC----------.....
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         WGS......HN...CQHSEDVSVECAPNN------py...
jgi|Capca1|226306|estExt_fgenesh1_pg.C_3460010        WGV......NN...CEHYEDLGI------------.....
jgi|Capca1|184961|fgenesh1_pg.C_scaffold_294000020    WGV......HD...CGHQEDVGLNC----------.....
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         WGY......HN...CNHYEDIYLRCSS--------ts...
jgi|Capca1|118585|e_gw1.201.53.1                      WGI......HN...CGHSEDVGLNC----------.....
jgi|Capca1|123226|e_gw1.2096.3.1                      WGA......HD...CTHEEDLGIDC----------.....
jgi|Capca1|98516|e_gw1.341.16.1                       WKI......HD...CTTNENVGI------------.....
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        IND......HS...CNHTNDVYVKCKPP-------tw...
jgi|Capca1|104431|e_gw1.131.94.1                      WGV......HN...CGHHEDVGLDC----------.....
jgi|Capca1|110177|e_gw1.313.52.1                      WGV......ND...CGHFEHVGSNC----------.....
jgi|Capca1|219569|estExt_fgenesh1_pg.C_310036         WGV......HN...CDHSEDLGIEC----------.....
jgi|Capca1|134605|e_gw1.62.120.1                      WGV......HA...CDHSQDVGLNC----------.....
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      WGN......AYq..CYHSHDLGV------------.....
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         WGI......HN...CAHSEDVYLSC----------a....
jgi|Capca1|198525|fgenesh1_pg.C_scaffold_437000011    DDDi.....QN...CTHADDVYVQCY---------h....
jgi|Capca1|112577|e_gw1.437.4.1                       -HA......QV...CSHSGDVYLQCH---------h....
jgi|Capca1|172188|estExt_Genewise1Plus.C_90003        WEV......HN...CDRRE----------------n....
jgi|Capca1|42946|gw1.216.27.1                         YDE......SSc..WDHDDDAYVQC----------.....
jgi|Capca1|98516|e_gw1.341.16.1                       WRD......HD...CTTNENLGLSC----------.....
jgi|Capca1|220650|estExt_fgenesh1_pg.C_610012         WGR......HD...CINYEDVYLFCNS--------nmp..
jgi|Capca1|171695|estExt_Genewise1Plus.C_4990006      IGF......SD...CDHNENVYLQCSH--------q....
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      PSDeydkfgCY...CSHYSDAGVTCYNY-------dg...
jgi|Capca1|41913|gw1.31440.1.1                        ---......--...---------------------l....
jgi|Capca1|217480|fgenesh1_pg.C_scaffold_28000033     NDP......TPy..CGHDSDVYVQCY---------h....
jgi|Capca1|124945|e_gw1.6275.2.1                      ---......--...---------------------yvla.
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        NIQ......IGhkiCLQQQTVHLYCEG--------t....
jgi|Capca1|123144|e_gw1.3716.1.1                      ---......--...---------------------.....
jgi|Capca1|222540|estExt_fgenesh1_pg.C_2030011        NYH......LYrc.MEAREYIYVRC----------gp...
jgi|Capca1|135691|e_gw1.1781.3.1                      WGQ......HD...CSHSEDAGVEC----------f....
jgi|Capca1|74318|gw1.8173.3.1                         WGT......GS...CGHGEDIGVACR---------e....
jgi|Capca1|74318|gw1.8173.3.1                         ---......--...---------------------.....
jgi|Capca1|127788|e_gw1.46501.2.1                     WGN......HD...CTHDEDAGVICNG--------v....
jgi|Capca1|127788|e_gw1.46501.2.1                     ---......--...---------------------.....
jgi|Capca1|186518|fgenesh1_pg.C_scaffold_160000025    ---......--...---------------------gydl.
jgi|Capca1|221427|estExt_fgenesh1_pg.C_200090         L--......--...---------------------nln..
jgi|Capca1|222886|estExt_fgenesh1_pg.C_3340010        EAK......SQ...CQLN--VVLKCYN--------h....
jgi|Capca1|222489|estExt_fgenesh1_pg.C_5010017        GVR......SQ...CR--MDIVLKC----------s....
jgi|Capca1|192037|fgenesh1_pg.C_scaffold_77000052     GAR......SQ...CQLN--IVL------------kcyn.
jgi|Capca1|170020|estExt_Genewise1Plus.C_6190001      ---......--...---------------------.....
jgi|Capca1|220759|estExt_fgenesh1_pg.C_360055         WDN......ID...---------------------vcs..
jgi|Capca1|203430|fgenesh1_pg.C_scaffold_13000104     GAK......SQ...CQLN--IVLKCY---------nh...
jgi|Capca1|222881|estExt_fgenesh1_pg.C_3340003        GNS......HQ...CNST--IAI------------rcn..
jgi|Capca1|104785|e_gw1.193.77.1                      ---......--...---------------------krc..


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Refine alignments

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Model: 0035772 (list models)
Initial SAMT99 seed:
Alignment:



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Sequence index (number) on each line: NoYes

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NoYes   Canis familiaris 58 (pseudogenes) - Dog
NoYes   Danio rerio 58 (pseudogenes) - Zebrafish
NoYes   Gallus gallus 58 (pseudogene) - Chicken
NoYes   Homo sapiens 58 (pseudogenes) - Human
NoYes   Mus musculus 56 (pseudogenes) - House mouse
NoYes   Pan troglodytes 58 (pseudogenes) - Chimpanzee
NoYes   Rattus norvegicus 58 (pseudogenes) - Norway rat
NoYes   Homo sapiens 76_38 - Human
NoYes   Pan troglodytes 76_2.1.4 - Chimpanzee
NoYes   Gorilla gorilla 76_3.1 - Western gorilla
NoYes   Pongo abelii 76_2 - Sumatran orangutan
NoYes   Tarsius syrichta 76_1
NoYes   Nomascus leucogenys 76_1.0 - Northern white-cheeked gibbon
NoYes   Papio anubis 76 - Olive baboon
NoYes   Macaca mulatta 76_1 - Rhesus monkey
NoYes   Callithrix jacchus 76_3.2.1 - White-tufted-ear marmoset
NoYes   Otolemur garnettii 76_3 - Small-eared galago
NoYes   Microcebus murinus 76_1 - Gray mouse lemur
NoYes   Rattus norvegicus 76_5.0 - Norway rat
NoYes   Mus musculus 76_38 - House mouse
NoYes   Dipodomys ordii 76_1 - Ord's kangaroo rat
NoYes   Ictidomys tridecemlineatus 76_2 - Thirteen-lined ground squirrel
NoYes   Heterocephalus glaber v1.7-2 - Naked mole-rat
NoYes   Cavia porcellus 76_3 - Domestic guinea pig
NoYes   Oryctolagus cuniculus 76_2 - Rabbit
NoYes   Ochotona princeps 76 - American pika
NoYes   Tupaia belangeri 76 - Northern tree shrew
NoYes   Sus scrofa 76_10.2 - Pig
NoYes   Bos taurus 76_3.1 - Cattle
NoYes   Ovis aries 76_3.1 - Sheep
NoYes   Vicugna pacos 76_1 - Alpaca
NoYes   Tursiops truncatus 76_1 - Bottlenose dolphin
NoYes   Mustela putorius furo 76_1.0 - Domestic ferret
NoYes   Ailuropoda melanoleuca 76_1 - Giant panda
NoYes   Canis familiaris 76_3.1 - Dog
NoYes   Felis catus 76_6.2 - Domestic cat
NoYes   Equus caballus 76_2 - Horse
NoYes   Myotis lucifugus 76_2.0 - Little brown bat
NoYes   Pteropus vampyrus 76_1 - Large flying fox
NoYes   Sorex araneus 76_1 - European shrew
NoYes   Erinaceus europaeus 76 - Western European hedgehog
NoYes   Procavia capensis 76_1 - Cape rock hyrax
NoYes   Loxodonta africana 76_3 - African savanna elephant
NoYes   Echinops telfairi 76 - Small Madagascar hedgehog
NoYes   Dasypus novemcinctus 76_2 - Nine-banded armadillo
NoYes   Choloepus hoffmanni 76_1 - Hoffmann's two-fingered sloth
NoYes   Macropus eugenii 76_1.0 - Tammar wallaby
NoYes   Sarcophilus harrisii 76_7.0 - Tasmanian devil
NoYes   Monodelphis domestica 76_5 - Gray short-tailed opossum
NoYes   Ornithorhynchus anatinus 76_5 - Platypus
NoYes   Saccoglossus kowalevskii v3.0
NoYes   Petromyzon marinus 76_7.0 - Sea lamprey
NoYes   Meleagris gallopavo 76_2 - Turkey
NoYes   Gallus gallus 76_4 - Chicken
NoYes   Anas platyrhynchos 76_1.0 - Mallard
NoYes   Taeniopygia guttata 76_3.2.4 - Zebra finch
NoYes   Ficedula albicollis 76_1.0 - Collared flycatcher
NoYes   Pelodiscus sinensis 76_1.0 - Chinese soft-shelled turtle
NoYes   Anolis carolinensis 76_2.0 - Green anole
NoYes   Xenopus laevis - African clawed frog
NoYes   Xenopus tropicalis 76_4.2 - Tropical clawed frog
NoYes   Latimeria chalumnae 76_1 - Coelacanth
NoYes   Lepisosteus oculatus 76 - Spotted gar
NoYes   Gadus morhua 76_1 - Atlantic cod
NoYes   Tetraodon nigroviridis 76_8 - Spotted green pufferfish
NoYes   Takifugu rubripes 76_4 - Torafugu
NoYes   Gasterosteus aculeatus 76_1 - Three-spined stickleback
NoYes   Oryzias latipes 76_1 - Japanese medaka
NoYes   Xiphophorus maculatus 76_4.4.2 - Southern platyfish
NoYes   Poecilia formosa 76 - Amazon molly
NoYes   Oreochromis niloticus 76_1.0 - Nile tilapia
NoYes   Astyanax mexicanus 76 - Mexican tetra
NoYes   Danio rerio 76_9 - Zebrafish
NoYes   Oikopleura dioica
NoYes   Ciona savignyi 76_2.0 - Pacific transparent sea squirt
NoYes   Ciona intestinalis 76 - Vase tunicate
NoYes   Strongylocentrotus purpuratus v3.1 - Purple sea urchin
NoYes   Adineta vaga
NoYes   Octopus bimaculoides 280
NoYes   Crassostrea gigas 22 - Pacific oyster
NoYes   Lottia gigantea - Owl limpet
NoYes   Helobdella robusta
NoYes   Capitella sp. I
NoYes   Danaus plexippus OGS1.0 - Monarch butterfly
NoYes   Heliconius melpomene - Postman butterfly
NoYes   Bombyx mori - Domestic silkworm
NoYes   Nasonia vitripennis - Jewel wasp
NoYes   Apis mellifera 38.2d - Honey bee
NoYes   Harpegnathos saltator v3.3 - Jerdon's jumping ant
NoYes   Linepithema humile v1.1 - Argentine ant
NoYes   Pogonomyrmex barbatus v1.2 - Red harvester ant
NoYes   Solenopsis invicta v.2.2.3 - Red fire ant
NoYes   Acromyrmex echinatior v3.8 - Panamanian leafcutter ant
NoYes   Atta cephalotes v1.1
NoYes   Camponotus floridanus v3.3 - Florida carpenter ant
NoYes   Lucilia cuprina - Australian sheep blowfly
NoYes   Drosophila grimshawi 1.3
NoYes   Drosophila willistoni 1.3
NoYes   Drosophila pseudoobscura 2.13
NoYes   Drosophila persimilis 1.3
NoYes   Drosophila suzukii
NoYes   Drosophila yakuba 1.3
NoYes   Drosophila simulans 1.3
NoYes   Drosophila sechellia 1.3
NoYes   Drosophila melanogaster 76_5 - Fruit fly
NoYes   Drosophila erecta 1.3
NoYes   Drosophila ananassae 1.3
NoYes   Drosophila virilis 1.2
NoYes   Drosophila mojavensis 1.3
NoYes   Megaselia scalaris 22
NoYes   Aedes aegypti 55 - Yellow fever mosquito
NoYes   Culex pipiens quinquefasciatus - Southern house mosquito
NoYes   Anopheles darlingi 22 - American malaria mosquito
NoYes   Anopheles gambiae 49_3j - African malaria mosquito
NoYes   Tribolium castaneum 3.0 - Red flour beetle
NoYes   Pediculus humanus corporis - Human body louse
NoYes   Acyrthosiphon pisum - Pea aphid
NoYes   Rhodnius prolixus 22
NoYes   Daphnia pulex - Common water flea
NoYes   Strigamia maritima 22
NoYes   Sarcoptes scabiei
NoYes   Tetranychus urticae - Two-spotted spider mite
NoYes   Ixodes scapularis - Black-legged tick
NoYes   Pristionchus pacificus
NoYes   Meloidogyne hapla
NoYes   Onchocerca volvulus 22
NoYes   Brugia malayi WS250 - Agent of lymphatic filariasis
NoYes   Caenorhabditis japonica
NoYes   Caenorhabditis brenneri
NoYes   Caenorhabditis remanei
NoYes   Caenorhabditis elegans 76_235 - Roundworm
NoYes   Caenorhabditis briggsae 2
NoYes   Trichinella spiralis 22
NoYes   Hymenolepis microstoma
NoYes   Echinococcus multilocularis
NoYes   Echinococcus granulosus
NoYes   Taenia solium - Pork tapeworm
NoYes   Schistosoma mansoni
NoYes   Mnemiopsis leidyi - Sea walnut
NoYes   Acropora digitifera v1.0
NoYes   Nematostella vectensis 1.0 - Starlet sea anemone
NoYes   Hydra vulgaris
NoYes   Amphimedon queenslandica
NoYes   Trichoplax adhaerens
NoYes   Chlorella variabilis sp. NC64A
NoYes   Volvox carteri f. nagariensis
NoYes   Volvox carteri v199
NoYes   Chlamydomonas reinhardtii 4.0
NoYes   Bigelowiella natans CCMP2755 22
NoYes   Cyanophora paradoxa
NoYes   Aureococcus anophagefferens
NoYes   Cryptosporidium hominis
NoYes   Cryptosporidium muris
NoYes   Cryptosporidium parvum Iowa II
NoYes   Neospora caninum
NoYes   Toxoplasma gondii VEG
NoYes   Toxoplasma gondii ME49
NoYes   Toxoplasma gondii GT1
NoYes   Babesia bovis T2Bo
NoYes   Theileria parva
NoYes   Theileria annulata
NoYes   Plasmodium falciparum 3D7
NoYes   Plasmodium vivax SaI-1 7.0
NoYes   Plasmodium knowlesi strain H
NoYes   Plasmodium yoelii ssp. yoelii 1
NoYes   Plasmodium chabaudi
NoYes   Plasmodium berghei ANKA
NoYes   Symbiodinium minutum clade B1 v1.2
NoYes   Guillardia theta CCMP2712 v1.0
NoYes   Emiliania huxleyi CCMP1516
NoYes   Xenopus (Silurana) tropicalis v7.1 (annotation v7.2) - Tropical clawed frog
NoYes   Drosophila melanogaster FlyBase 5.12 - Fruit fly
NoYes   Anopheles gambiae VectorBase AgamP3.6 - African malaria mosquito
NoYes   Ascaris suum Victoria/Ghent - Pig roundworm
NoYes   Caenorhabditis elegans WormBase WS218 - Roundworm
NoYes   Neospora caninum Nc-Liverpool 6.2
NoYes   Plasmodium falciparum HB3
NoYes   Plasmodium falciparum Dd2
NoYes   Homo sapiens 69_37 - Human
NoYes   Pan troglodytes 69_2.1.4 - Chimpanzee
NoYes   Gorilla gorilla 69_3.1 - Western gorilla
NoYes   Pongo abelii 69_2 - Sumatran orangutan
NoYes   Nomascus leucogenys 69_1.0 - Northern white-cheeked gibbon
NoYes   Macaca mulatta 69_1 - Rhesus monkey
NoYes   Callithrix jacchus 69_3.2.1 - White-tufted-ear marmoset
NoYes   Otolemur garnettii 69_3 - Small-eared galago
NoYes   Tarsius syrichta 69_1
NoYes   Microcebus murinus 69_1 - Gray mouse lemur
NoYes   Rattus norvegicus 69_3.4 - Norway rat
NoYes   Mus musculus 69_38 - House mouse
NoYes   Dipodomys ordii 69_1 - Ord's kangaroo rat
NoYes   Ictidomys tridecemlineatus 69_2 - Thirteen-lined ground squirrel
NoYes   Cavia porcellus 69_3 - Domestic guinea pig
NoYes   Oryctolagus cuniculus 69_2 - Rabbit
NoYes   Ochotona princeps 69 - American pika
NoYes   Tupaia belangeri 69 - Northern tree shrew
NoYes   Sus scrofa 69_10.2 - Pig
NoYes   Bos taurus 69_3.1 - Cattle
NoYes   Vicugna pacos 69_1 - Alpaca
NoYes   Tursiops truncatus 69_1 - Bottlenose dolphin
NoYes   Mustela putorius furo 69_1.0 - Domestic ferret
NoYes   Ailuropoda melanoleuca 69_1 - Giant panda
NoYes   Canis familiaris 69_3.1 - Dog
NoYes   Felis catus 69 - Domestic cat
NoYes   Equus caballus 69_2 - Horse
NoYes   Myotis lucifugus 69_2.0 - Little brown bat
NoYes   Pteropus vampyrus 69_1 - Large flying fox
NoYes   Sorex araneus 69_1 - European shrew
NoYes   Erinaceus europaeus 69 - Western European hedgehog
NoYes   Procavia capensis 69_1 - Cape rock hyrax
NoYes   Loxodonta africana 69_3 - African savanna elephant
NoYes   Echinops telfairi 69 - Small Madagascar hedgehog
NoYes   Dasypus novemcinctus 69_2 - Nine-banded armadillo
NoYes   Choloepus hoffmanni 69_1 - Hoffmann's two-fingered sloth
NoYes   Macropus eugenii 69_1.0 - Tammar wallaby
NoYes   Sarcophilus harrisii 69_7.0 - Tasmanian devil
NoYes   Monodelphis domestica 69_5 - Gray short-tailed opossum
NoYes   Ornithorhynchus anatinus 69_5 - Platypus
NoYes   Petromyzon marinus 69_7.0 - Sea lamprey
NoYes   Meleagris gallopavo 69_2 - Turkey
NoYes   Gallus gallus 69_2 - Chicken
NoYes   Taeniopygia guttata 69_3.2.4 - Zebra finch
NoYes   Pelodiscus sinensis 69_1.0 - Chinese soft-shelled turtle
NoYes   Anolis carolinensis 69_2.0 - Green anole
NoYes   Xenopus tropicalis 69_4.2 - Tropical clawed frog
NoYes   Latimeria chalumnae 69_1 - Coelacanth
NoYes   Gadus morhua 69_1 - Atlantic cod
NoYes   Tetraodon nigroviridis 69_8 - Spotted green pufferfish
NoYes   Takifugu rubripes 69_4 - Torafugu
NoYes   Gasterosteus aculeatus 69_1 - Three-spined stickleback
NoYes   Oryzias latipes 69_1 - Japanese medaka
NoYes   Xiphophorus maculatus 69_4.4.2 - Southern platyfish
NoYes   Oreochromis niloticus 69_1.0 - Nile tilapia
NoYes   Danio rerio 69_9 - Zebrafish
NoYes   Ciona savignyi 69_2.0 - Pacific transparent sea squirt
NoYes   Ciona intestinalis 69 - Vase tunicate
NoYes   Drosophila melanogaster 69_5 - Fruit fly
NoYes   Caenorhabditis elegans 69_215 - Roundworm
NoYes   Homo sapiens 75_37 - Human
NoYes   Homo sapiens - Human
NoYes   Mus musculus 63_37 (longest transcript per gene) - House mouse
NoYes   Loa loa v3.3 - Eye worm
NoYes   Wuchereria bancrofti v1.0 - Agent of lymphatic filariasis
NoYes   NCBI 2017_08 genome
NoYes   Protozoadb 2010_08 (Protozoadb)
NoYes   Soil microbial communities from sample at FACE Site 1 Maryland Estuary CO2- (Maryland Estuary ambient) (meta-genome)
NoYes   Soil microbial communities from sample at FACE Site 3 Nevada Test Site Creosote CO2+ (meta-genome)
NoYes   Soil microbial communities from sample at FACE Site 3 Nevada Test Site Creosote CO2- (meta-genome)
NoYes   STRING v9.0.5 (STRING)
NoYes   Uniprot 2018_03 genome
NoYes   Global Ocean Sampling Expedition (GOS)
NoYes   PDB chains (SCOP 1.75) (PDB)
NoYes   Protein Data Bank (all PDB sequenc)
NoYes   SCOP2 SCOPe CATH ECOD (all domain sequ)
NoYes   TargetDB (Targets)
NoYes   ALL (only advised for small superfamilies)


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