; SAM: prettyalign v3.1b (February 24, 1999) compiled 04/18/00_11:44:15 ; (c) 1992-1999 Regents of the University of California, Santa Cruz ; ; Sequence Alignment and Modeling Software System ; http://www.cse.ucsc.edu/research/compbio/sam.html ; ; ------ Citations (HMMs, SAM) ------ ; A. Krogh et al., Hidden Markov models in computational biology: ; ------------- Citations (SAM, SAM-T99, HMMs) ----------------- ; R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: ; Extension and analysis of the basic method, CABIOS 12:95-107, 1996. ; K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting ; remote protein homologies, Bioinformatics 14(10):846-856, 1999. ; A. Krogh et al., Hidden Markov models in computational biology: ; Applications to protein modeling, JMB 235:1501-1531, Feb 1994. ; -------------------------------------------------------------- ; Sequence numbers correspond to the following labels: ; 1 gi|3293448|gb|AAC25718.1|_125:205 ; 2 gi|3293450|gb|AAC25719.1|_125:205 ; 3 gi|3293442|gb|AAC25715.1|_125:205 ; 4 gi|2246694|gb|AAB62704.1|_125:205 ; 5 gi|3293440|gb|AAC25714.1|_125:205 ; 6 gi|3293446|gb|AAC25717.1|_125:205 ; 7 gi|3293444|gb|AAC25716.1|_125:205 ; 8 gi|3309567|gb|AAC79678.1|_193:273 ; 9 gi|3309565|gb|AAC79677.1|_179:259 ; 10 gi|3309563|gb|AAC79676.1|_193:273 ; 11 gi|1389895|gb|AAC35994.1|_125:205 ; 12 gi|8393248|ref|NP_058570.1|_194:274 ; 13 gi|3309569|gb|AAC79679.1|_193:273 ; 14 gi|2133648|pir||S69214_211:291 ; 15 gi|4758586|ref|NP_004500.1|_154:245 ; 16 gi|1362890|pir||B49515_215:291 ; 17 gi|4758588|ref|NP_004501.1|_252:328 ; 18 T0105 ; 19 gi|6175041|sp|P23497|SP10_HUMAN_595:686 ; 20 gi|3252911|gb|AAC39790.1|_596:687 ; 21 gi|7239187|gb|AAF43110.1|AF169948_1_2:61 ; 22 gi|6005880|ref|NP_009168.1|_466:555 ; 23 gi|6166538|sp|Q13342|LY10_HUMAN_580:669 ; 24 gi|2340117|gb|AAC53506.1|_378:467 ; 25 gi|2340123|gb|AAC53509.1|_360:449 ; 26 gi|2340121|gb|AAC53508.1|_378:467 ; 27 gi|2340131|gb|AAC53513.1|_360:449 ; 28 gi|7305513|ref|NP_038701.1|_378:467 ; 29 gi|7495061|pir||T32370_91:158 ; 30 gi|7504108|pir||T22598_6:84 ; 31 gi|7496508|pir||T19470_72:150 ; 32 gi|7497426|pir||T19932_76:151 ; 33 gi|5729846|ref|NP_006573.1|_86:166 ; 34 gi|7021843|dbj|BAA91410.1|_76:156 ; 35 gi|5764636|gb|AAD51352.1|AF173868_1_76:156 ; 36 gi|8118043|gb|AAF72874.1|AF210433_1_77:156 ; 37 gi|7643905|gb|AAF65538.1|AF205779_1_82:163 ; 38 gi|6331220|dbj|BAA86583.1|_83:164 ; 39 gi|7643903|gb|AAF65537.1|AF205778_1_82:163 ; 40 gi|7643907|gb|AAF65539.1|AF205780_1_82:163 ; 41 gi|6912568|ref|NP_036516.1|_82:163 ; 42 gi|3746541|gb|AAC64001.1|_81:162 ; 43 gi|6599186|emb|CAB63765.1|_57:138 ; 44 gi|7108546|gb|AAF36467.1|AF128122_1_190:247 ; 45 gi|7108534|gb|AAF36461.1|AF128116_1_190:247 ; 46 gi|7108548|gb|AAF36468.1|AF128123_1_190:247 ; 47 gi|7108536|gb|AAF36462.1|AF128117_1_190:247 ; 48 gi|7108550|gb|AAF36469.1|AF128124_1_190:247 ; 49 gi|7108538|gb|AAF36463.1|AF128118_1_190:247 ; 50 gi|6753020|ref|NP_033776.1|_190:247 ; 51 gi|7108540|gb|AAF36464.1|AF128119_1_190:247 ; 52 gi|7108542|gb|AAF36465.1|AF128120_1_190:247 ; 53 gi|7108552|gb|AAF36470.1|AF128125_1_190:247 ; 54 gi|7108544|gb|AAF36466.1|AF128121_1_190:247 ; 55 gi|7108532|gb|AAF36460.1|AF128115_1_190:247 10 20 30 40 50 60 | | | | | | 1 NWDPSVYDSELPVRCRNISGTLYKNRL.GSAAGDGASSRGR..-TGTCPTEFEAMAGRASSKDWK 2 NWDPSVYDSELPVRCRNISGTLYKNRL.GSAAGDGASSRGR..-TGTCPTEFEAMAGRASSKDWK 3 NWDPSVCDNDLPVRCRNISGTLYKNKL.GSGGRGRCIKQGE..-NWYSPTEFEAMAGRASSKDWK 4 NWDPSVYDSELPVRCRNISGTLYKNRL.GSGGRGRCIKQGE..-NWYSPTEFEAMAGRTSSKDWK 5 NWDPSVYDSDLPVRCRNISGTLYKNRL.GSGGRGRCIKQGE..-NWYSPTEFEAMAGRASSKDWK 6 NWDPSVYDSELPVRCRNISGTLYKNKL.GSGGRGRCIKQGE..-NWYSPTEFEAMAGRASSKDWK 7 NWDPSVYDSELPVRCRNISGTLYKNKL.GSGGRGRCIKQGE..-NWYSPTEFEAMAGRASSKDWK 8 NWDPSVYDSELPVRCRNISGTLYKNRL.GSGGRGRCIKQGE..-NWYSPTEFEAMAGRASSKDWK 9 NWDPSVYDSELPVRCRNISGTLYKNRL.GSGGRGRCIKQGE..-NWYSPTEFEAMAGRASSKDWK 10 NWDPSVYDSELPVRCRNISGTLYKNRL.GSGGRGRCIKQGE..-NWYSPTEFEAMAGRASSKDWK 11 NWDPSVYDSELPVRCRNISGTLYKSRL.GSGGRGRCIKQGE..-NWYSPTEFEAMAGRASSKDWK 12 NWDPSVYDSELPVRCRNISGTLYKSRL.GSGGRGRCIKQGE..-NWYSPTEFEAMAGRASSKDWK 13 NWDPSVYDSELPVRCRNISGTLYKSRL.GSGGRGRCIKQGE..-NWYSPTEFEAMAGRASSKDWK 14 ENPSTQHNEVFQIRCKTTCAELYRSKL.GSGGRGRCVKYKD..-KWHTPSEFEHVCGRGSSKDWK 15 -DTVDFHCSKSPVTCGEAKGILYKKKM.KHGSSVKCIRNED..GTWLTPNEFEVEGKGRNAKNWK 16 -DTVDFHCSKLPVTCGEAKGILYKKKM.KHGSSVKCIRNED..GTWLTPNEFEVEGKGRNAKNWK 17 -DTVDFHCSKLPVTCGEAKGILYKKKM.KHGSSVKCIRNED..GTWLTPNEFEVEGKGRNAKNWK 18 DENINFKQSELPVTCGEVKGTLYKERF.KQGTSKKCIQSED..KKWFTPREFEIEGDRGASKNWK 19 DENINFKQSELPVTCGEVKGTLYKERF.KQGTSKKCIQSED..KKWFTPREFEIEGDRGASKNWK 20 -ENINFKQSELPVTCGEVKGTLYKERF.KQGTSKKCIQSED..KKWFTPREFEIEGDRGASKNWK 21 ---------------------------.------KCIQSED..KKWFTPREFEIEGDRRASKNWK 22 DETVDFKAPLLPVTCGGVKGILHKKKL.QQGILVKCIQTED..GKWFTPTEFEIKGGHARSKNWR 23 DETVDFKAPLLPVTCGGVKGILHKKKL.QQGILVKCIQTED..GKWFTPTEFEIKGGHARSKNWR 24 EENADFGGAELPVVCGNVQGFLNKEKF.KQGIYSRSIRSET..GRLFTPMDFEIEGNCEKAKNWR 25 EENADFGGAELPVVCGNVQGFLNKEKF.KQGIYVRSIRSET..GRLFTPMDFEIEGNCEKAKNWR 26 EENADFGGAELPAVCGNVQGFLNKEKF.KQGIYVRSIRSET..GRLFTPMDFEIEGNCEKAKNWR 27 EENADFGGAELPVVCGNAQGFLDKEKF.KQGIYVRSIRGKT..GRLFTPMDFEIEGNCEKAKNWR 28 EENADFGGAELPVVCGNAQGFLDKEKF.KQGIYVRSIRGKT..GRLFTPMDFEIEGNCEKAKNWR 29 --------KYMELKCGALVARLHTELFiCPGIREKCIEVLDcpGELLTPVEFTIKAEKSKQKDWK 30 -----LLKIIFQVKCGTLTAKMVTKLFtCPGIHQNCILIDGe.TEYISPKEFTVRANKDKQKDWK 31 ---EGDASPTVPVSCGVVNGKMHLNLFmCPGIHQPCIEVGN..-DLLSPKQFTIRGDKERQKDWK 32 ------NATTVPVTCGYVKGIMHLKLFrCPGIRQACIEYES..-QYLTPKQFTELGGKGRQKDWK 33 -EANEDMEIAYPITCGESKAILLWKKFvCPGINVKCVKFND..-QLISPKHFVHLAGKSTLKDWK 34 -EANEDMEIAYPITCGESKAILLWKKFvCPGINVKCVKFND..-QLISPKHFVHLAGKSTLKDWK 35 -EANEDMEIAYPITCGESKAILLWKKFvCPGINVKCVKFND..-QLISPKHFVHLAGKSTLKDWK 36 --GNEDMEIAYPITCGESKAVLLWKKFvCPGINVKCVKFND..-QLISPKHFVHLAGKSTLKDWK 37 EGENLEAEIVYPITCGDSRANLIWRKFvCPGINVKCVQYDE..-HVISPKEFVHLAGKSTLKDWK 38 EGENLEAEIVYPITCGDSRANLIWRKFvCPGINVKCVQYDE..-HVISPKEFVHLAGKSTLKDWK 39 EGENLEAEIVYPITCGDSRANLIWRKFvCPGINVKCVQYDE..-HVISPKEFVHLAGKSTLKDWK 40 EGENLEAEIVYPITCGDSRANLIWRKFvCPGINVKCVQYDE..-HVISPKEFVHLAGKSTLKDWK 41 EGENLEAEIVYPITCGDSRANLIWRKFvCPGINVKCVQYDE..-HVISPKEFVHLAGKSTLKDWK 42 EGENLEAEIVYPITCGDSRANLIWRKFvCPGINVKCVQYDE..-HVISPKEFVHLAGKSTLKDWK 43 EGENLEAEIVYPITCGDSRANLIWRKFvCPGINVKCVQYDE..-HVISPKEFVHLAGKSTLKDWK 44 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 45 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 46 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 47 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 48 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 49 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 50 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 51 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 52 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 53 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 54 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 55 QRAVTVASGDVPGTRGAVEGILIQQVF.ESGRSKKCIQVGG..-EFYTPNKFEDPSGNLKNK--- 70 80 90 | | | 1 RSIRYAGRPLQCLIQDGILN------------ 2 RSIRYAGRPLQCLIQDGILN------------ 3 RSIRYAGRPLQCLIQDGILN------------ 4 RSIRYAGRPLQCLIQDGILN------------ 5 RSIRYAGRPLQCLIQDGILN------------ 6 RSIRYAGRPLQCLIQDGILN------------ 7 RSIRYAGRPLQCLIQDGILN------------ 8 RSIRYAGRPLQCLIQDGILN------------ 9 RSIRYAGRPLQCLIQDGILN------------ 10 RSIRYAGRPLQCLIQDGILN------------ 11 RSIRYAGRPLQCLIQDGILN------------ 12 RSIRYAGRPLQCLIQDGILN------------ 13 RSIRYAGRPLQCLIQDGILN------------ 14 RSIKYGGKSLQSLIDEGTLT------------ 15 RNIRCEGMTLGELLKSGLLLCPPRINLKREL- 16 RNIRCEGMTLGELLKR---------------- 17 RNIRCEGMTLGELLKR---------------- 18 LSIRCGGYTLKVLMENKFLPEPPSTRKKVTIK 19 LSIRCGGYTLKVLMENKFLPEPPSTRKKVT-- 20 LSIRCGGYTLKVLMENKFLPEPPSTRKKRIL- 21 LSIRCGGYTLKFLMENKLLPEPPSTRKKRIL- 22 LSVRCGGWPLRWLMENGFLPDPPRIRYR---- 23 LSVRCGGWPLRWLMENGFLPDPPRIRYR---- 24 QTIRCKGWTLRELIQQGVLQDPPRKKKE---- 25 QTIRCKGWTLRELIQKGVLQDPPRKKKE---- 26 QTIRCKGWTLRELIQKGVLQDPPRKKKE---- 27 QTIRCKGWTLRELIQKGVLQDPPRKKKE---- 28 QTIRCKGWTLRELIQKGVLQDPPRKKKE---- 29 GAIKHNGRMLR--------------------- 30 GSIRIGKSNLRTLMEMRSLD------------ 31 ASIRVGRSSLRTHMEAMTID------------ 32 ACIRVENVSLRTLLENKTID------------ 33 RAIRLGGIMLRKMMDSGQID------------ 34 RAIRLGGIMLRKMMDSGQID------------ 35 RAIRLGGIMLRKMMDSGQID------------ 36 RAIRLGGIMLRKMMDSGQID------------ 37 RAIRMNGIMLRKIMDSGELD------------ 38 RAIRMNGIMLRKIMDSGELD------------ 39 RAIRMNGIMLRKIMDSGELD------------ 40 RAIRMNGIMLRKIMDSGELD------------ 41 RAIRMNGIMLRKIMDSGELD------------ 42 RAIRMNGIMLRKIMDSGELD------------ 43 RAIRMNGIMLRKIMDSGELD------------ 44 -------------------------------- 45 -------------------------------- 46 -------------------------------- 47 -------------------------------- 48 -------------------------------- 49 -------------------------------- 50 -------------------------------- 51 -------------------------------- 52 -------------------------------- 53 -------------------------------- 54 -------------------------------- 55 --------------------------------