HHsearch 1.5 NAME c5m1gB_ FAM FILE c5m1gB_ COM /bmm/www/servers/phyre2/HH/hhmake -i c5m1gB_.a3m DATE Thu Feb 9 17:41:57 2017 LENG 99 match states, 99 columns in multiple alignment FILT 7 out of 11 sequences passed filter (-id 90 -cov 0 -qid 0 -qsc -20.00 -diff 100) NEFF 2.4 EVD 0.4140 -0.0970 SEQ >ss_dssp CCCSSSCCCSSCHHHHHHHHHTCHHHHHHHHHHHHCSCHHHHHHHHTTTSSSHHHHHHHHHHHHHCSCSHHHHHTHHHHHHHHHHHHTBCTTSCBSSCC >sa_dssp ECDEECEBDEDADAACDCCEECABACAADDABDDBCDBCEBABDCAEDCBDDECABDAADDCBEEDEDEDCCBECACEBADCABEEBCBCCECEDECEE >ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC >ss_conf 931122478899999987542468999874356027872368988531067379999999985113114899999999999999995755115765689 >Consensus RtxGxxxlHxLxxvlxxIaxxeGixxAxxlGmxftxxnxxLvwgiiRxxLPGQAxvtxxQxrlDxxxxdqxRxxxfxxxlxxvyexLGLnxxGQsirxr >c5m1gB_ RTHGTFPMHQLGNVIKGIVDQEGVATAYTLGMMLSGQNYQLVSGIIRGYLPGQAVVTALQQRLDQEIDDQTRAETFIQHLNAVYEILGLNARGQSIRLE >UniRef50_Q00071(271-566:647) p3 n=10 Tax=Spumavirus RepID=GAG_SFV1 E=2e-76 s/c=0.36 id=58% cov=101% RTHGSYPLHQLAEVLRRVSNSEGAAAAWQLGMMLTNQDYNLVWGMVRPLLPGQAVVTAMQHRLDQEVSDAARIVSFVNHLNAVYELLGLNARGQNLRVS >UniRef50_A8HC77(246-560:623) Gag n=1 Tax=Spider monkey foamy virus RepID=A8HC77_9RETR E=4e-50 s/c=0.27 id=40% cov=101% RIYGVIPLHDLPHTMAEVARREGILVAFNMGMTFTNNSFDVVWGIIRPLLPGQASVAMLQGYLDQYQGQQQKAQAFPTLLRRTFETLGLNYLGQSIRsnq pAR >UniRef50_O41893(203-474:544) Gag polyprotein n=3 Tax=Bovine foamy virus RepID=O41893_9RETR E=2e-78 s/c=0.50 id=40% cov=101% RTFGATALHALGDTLGQIANSDGIVMAIELGLLFSDDNWDLVWGICRRFLPGQAVCVAVQARLDPLPDNATRIVMISHIIRDVYAILGLDPLGrpmqQTL PRR >UniRef50_Q9J4C8(215-503:559) Gag n=1 Tax=Equine foamy virus RepID=Q9J4C8_9RETR E=2e-55 s/c=0.36 id=36% cov=101% RTFGATALHALSDVLKGIAQRNGVVMALEMGLMFTNDDWDLTWSVIRRCLPGQASVVTIQARLDALPNNQARIIQAGFIIREVYEVLGLDPLGRplnfpg GLTQR >UniRef50_Q87039(286-584:653) p3 n=102 Tax=Simian foamy virus RepID=GAG_SFVCP E=1e-101 s/c=0.49 id=90% cov=101% RTYGQYPLHQLGNVLKGIADQEGVATAYTLGMMLSGQNYQLVSGIIRGYLPGQAVVTAMQQRLDQEIDDQTRAETFIQHLNAVYEILGLNARGQSIRAS >UniRef50_O56860(168-456:514) p3 n=3 Tax=Feline foamy virus RepID=GAG_FFV E=4e-92 s/c=0.51 id=46% cov=101% KAHGAAAQHELAGVLSDINKKEGIQTAFNLGMQFTDGNWSLVWGIIRTLLPGQALVTNAQSQFDLMGDDIQRAENFPRVINNLYTMLGLNIHGQSIRPR # NULL 3706 5728 4211 4064 4839 3729 4763 4308 4069 3323 5509 4640 4464 4937 4285 4423 3815 3783 6325 4665 HMM A C D E F G H I K L M N P Q R S T V W Y M->M M->I M->D I->M I->I D->M D->D Neff Neff_I Neff_D 0 * * 0 * 0 * * * * R 1 * * * * * * * * 2592 * * * * * 262 * * * * * 1 0 * * * * * * 2352 0 0 T 2 2592 * * * * * * 2532 * * * * * * * * 597 * * * 2 0 * * * * * * 2352 0 0 H 3 * * * * 1713 * 1261 * * * * * * * * * * * * 1848 3 0 * * * * * * 2352 0 0 G 4 * * * * * 0 * * * * * * * * * * * * * * 4 0 * * * * * * 2352 0 0 T 5 1087 * * * * * * * * * * * * 3252 * 2878 3118 2532 * * 5 0 * * * * * * 2352 0 0 F 6 2592 * * * 3118 * * 2532 * * * * * * * * 1713 * * 2053 6 0 * * * * * * 2352 0 0 P 7 1087 * * * * * * * * * * * 918 * * * * * * * 7 0 * * * * * * 2352 0 0 M 8 * * * * * * * * * 476 3118 * * 2592 * * * * * * 8 0 * * * * * * 2352 0 0 H 9 * * * * * * 0 * * * * * * * * * * * * * 9 0 * * * * * * 2352 0 0 Q 10 1713 * 2532 2592 * * * * * * * * * 1489 * * * * * * 10 0 * * * * * * 2352 0 0 L 11 * * * * * * * * * 0 * * * * * * * * * * 11 0 * * * * * * 2352 0 0 G 12 1728 * * * * 1445 * * * * * * 2532 * * 2664 * * * * 12 0 * * * * * * 2352 0 0 N 13 * * 1713 2878 * 2592 2532 * * * * 2183 * * * * * * * * 13 0 * * * * * * 2352 0 0 V 14 * * * * * * * * * * * * * * * * 1644 557 * * 14 0 * * * * * * 2352 0 0 I 15 * * * * * * * 3118 * 490 2532 * * * * * * * * * 15 0 * * * * * * 2352 0 0 K 16 2532 * * * * 2764 * * 1404 * * * * * 2878 2592 * * * * 16 0 * * * * * * 2352 0 0 G 17 * * 2592 2532 * 1404 * * * * * * * 2764 2878 * * * * * 17 0 * * * * * * 2352 0 0 I 18 * * * * * * * 533 * * * * * * * * * 1694 * * 18 0 * * * * * * 2352 0 0 V 19 779 * * * * * * * * * * 2592 * * * 2878 * 3118 * * 19 0 * * * * * * 2352 0 0 D 20 * * 2183 * * * * * 2592 * * 1820 * 2664 2532 * * * * * 20 0 * * * * * * 2352 0 0 Q 21 * * * * * * * * 2592 * * * * 2183 1596 1820 * * * * 21 0 * * * * * * 2352 0 0 E 22 * * 2764 525 * * * * * * * 2664 * * * * * * * * 22 0 * * * * * * 2352 0 0 G 23 * * * * * 0 * * * * * * * * * * * * * * 23 0 * * * * * * 2352 0 0 V 24 2878 * * * * * * 1041 * * * * * * * * * 1404 * * 24 0 * * * * * * 2352 0 0 A 25 1489 * * * * * * * * 2532 * * * 2592 * * * 1713 * * 25 0 * * * * * * 2352 0 0 T 26 2878 * * * * * * * * * 1713 * * * * * 1373 2532 * * 26 0 * * * * * * 2352 0 0 A 27 0 * * * * * * * * * * * * * * * * * * * 27 0 * * * * * * 2352 0 0 Y 28 * * * * 1562 * * 2764 * 2664 * * * * * * * * 2878 2183 28 0 * * * * * * 2352 0 0 T 29 * * * 1713 * * * * * * * 1562 * 2878 * * 2183 * * * 29 0 * * * * * * 2352 0 0 L 30 * * * * * * * * * 579 1596 * * * * * * * * * 30 0 * * * * * * 2352 0 0 G 31 * * * * * 0 * * * * * * * * * * * * * * 31 0 * * * * * * 2352 0 0 M 32 * * * * * * * * * 1713 525 * * * * * * * * * 32 0 * * * * * * 2352 0 0 M 33 * * * * * * * * * 2764 960 * * 2592 * * 2532 * * * 33 0 * * * * * * 2352 0 0 L 34 * * * * 635 * * * * 1489 * * * * * * * * * * 34 0 * * * * * * 2352 0 0 S 35 * * * * * * * * * * * * * * * 1445 660 * * * 35 0 * * * * * * 2352 0 0 G 36 * * 1676 * * 2183 * * * * * 1099 * * * * * * * * 36 0 * * * * * * 2352 0 0 Q 37 * * 1713 * * 2592 * * * * * 2532 * 1489 * * * * * * 37 0 * * * * * * 2352 0 0 N 38 * * 1767 * * * * * * * * 907 * * * 2532 * * * * 38 0 * * * * * * 2352 0 0 Y 39 * * * * 2532 * * * * * * * * * * * * * 1087 1489 39 0 * * * * * * 2352 0 0 Q 40 * * 1065 * * * * * * * * 2878 * 2183 * 2592 * * * * 40 0 * * * * * * 2352 0 0 L 41 * * * * * * * * * 274 * * * * * * * 2532 * * 41 0 * * * * * * 2352 0 0 V 42 * * * * * * * * * * * * * * * * 2664 248 * * 42 0 * * * * * * 2352 0 0 S 43 * * * * * * * * * * * * * * * 2183 * * 359 * 43 0 * * * * * * 2352 0 0 G 44 * * * * * 248 * * * * * * * * * 2664 * * * * 44 0 * * * * * * 2352 0 0 I 45 * * * * * * * 502 * * 2878 * * * * * * 2664 * * 45 0 * * * * * * 2352 0 0 I 46 * 2764 * * * * * 480 * * * * * * * * * 2878 * * 46 0 * * * * * * 2352 0 0 R 47 * * * * * * * * * * * * * * 0 * * * * * 47 0 * * * * * * 2352 0 0 G 48 * * * * * 2183 * * * * * * 1694 * 1713 * 2592 * * * 48 0 * * * * * * 2352 0 0 Y 49 * 2664 * * 2764 * * * * 1074 * * * * * * * * * 2183 49 0 * * * * * * 2352 0 0 L 50 * * * * * * * * * 0 * * * * * * * * * * 50 0 * * * * * * 2352 0 0 P 51 * * * * * * * * * * * * 0 * * * * * * * 51 0 * * * * * * 2352 0 0 G 52 * * * * * 0 * * * * * * * * * * * * * * 52 0 * * * * * * 2352 0 0 Q 53 * * * * * * * * * * * * * 0 * * * * * * 53 0 * * * * * * 2352 0 0 A 54 0 * * * * * * * * * * * * * * * * * * * 54 0 * * * * * * 2352 0 0 V 55 * * * * * * * * * 2592 * * * * * 1596 * 990 * * 55 0 * * * * * * 2352 0 0 V 56 * 2764 * * * * * * * * * * * * * * * 230 * * 56 0 * * * * * * 2352 0 0 T 57 2532 * * * * * * * * * * * * * * * 938 1713 * * 57 0 * * * * * * 2352 0 0 A 58 990 * * * * * * * * * 2532 2592 * * * * 2664 * * * 58 0 * * * * * * 2352 0 0 L 59 2592 * * * * * * 2664 * 1795 2053 * * * * * * 2764 * * 59 0 * * * * * * 2352 0 0 Q 60 * * * * * * * * * * * * * 0 * * * * * * 60 0 * * * * * * 2352 0 0 Q 61 1713 * * * * 2532 2878 * * * * * * 2183 * 2592 * * * * 61 0 * * * * * * 2352 0 0 R 62 * * * * * * * * * * * * * 2592 597 * * * * 2532 62 0 * * * * * * 2352 0 0 L 63 * * * * 2592 * * * * 262 * * * * * * * * * * 63 0 * * * * * * 2352 0 0 D 64 * * 0 * * * * * * * * * * * * * * * * * 64 0 * * * * * * 2352 0 0 Q 65 2664 * * * * * * * * 2592 * * 2764 918 * * * * * * 65 0 * * * * * * 2352 0 0 E 66 * * * 1489 * * * * * 1713 2592 * * * * * * * * 2532 66 0 * * * * * * 2352 0 0 I 67 * * * * * 2592 * 2183 * * * * 1713 2532 * * * 2878 * * 67 0 * * * * * * 2352 0 0 D 68 * * 907 * * 2532 * * * * * 2664 * * * 2878 * * * * 68 0 * * * * * * 2352 0 0 D 69 * * 938 * * * * * * * * 1713 * 2532 * * * * * * 69 0 * * * * * * 2352 0 0 Q 70 1820 * * * * * * 2592 * * * * * 860 * * * * * * 70 0 * * * * * * 2352 0 0 T 71 1767 * * * * * * * * * * * * 1562 * * 1445 * * * 71 0 * * * * * * 2352 0 0 R 72 * * * * * * * * 2532 * * * * * 274 * * * * * 72 0 * * * * * * 2352 0 0 A 73 839 * * * * * * 1181 * * * * * * * * * * * * 73 0 * * * * * * 2352 0 0 E 74 * * * 1373 * * * 2664 * * * * * 2532 * * * 1820 * * 74 0 * * * * * * 2352 0 0 T 75 2532 * * * * * * * * * 2764 2592 * 2664 * 2878 2183 * * * 75 0 * * * * * * 2352 0 0 F 76 2664 * * * 525 * * 2764 * * * * * * * * * * * * 76 0 * * * * * * 2352 0 0 I 77 * * * * * 2664 * 2183 * * * * 1562 * * 2764 * 2878 * * 77 0 * * * * * * 2352 0 0 Q 78 * * * * 2664 * 2764 * * * * 2878 * 2183 2592 * 2532 * * * 78 0 * * * * * * 2352 0 0 H 79 * * * * * * 1489 1713 * 2532 * * * * * * * 2592 * * 79 0 * * * * * * 2352 0 0 L 80 * * * * * * * 1087 * 918 * * * * * * * * * * 80 0 * * * * * * 2352 0 0 N 81 * * * * * * * * * * * 938 * * 1065 * * * * * 81 0 * * * * * * 2352 0 0 A 82 1489 * 2764 2664 * * * * * * * 2592 * * 2532 * * * * * 82 0 * * * * * * 2352 0 0 V 83 * * * * * * * * * 2592 * * * * * * 2532 597 * * 83 0 * * * * * * 2352 0 0 Y 84 * * * * 2532 * * * * * * * * * * * * * * 274 84 0 * * * * * * 2352 0 0 E 85 2764 * * 542 * * * * * * * * * * * * 2592 * * * 85 0 * * * * * * 2352 0 0 I 86 * * * * * * * 1445 * 2878 2592 * * * * * 2532 2664 * * 86 0 * * * * * * 2352 0 0 L 87 * * * * * * * * * 0 * * * * * * * * * * 87 0 * * * * * * 2352 0 0 G 88 * * * * * 0 * * * * * * * * * * * * * * 88 0 * * * * * * 2352 0 0 L 89 * * * * * * * * * 0 * * * * * * * * * * 89 0 * * * * * * 2352 0 0 N 90 * * 1713 * * * * * * * * 525 * * * * * * * * 90 0 * * * * * * 2352 0 0 A 91 1489 * * * * * * 2592 * * * * 1713 * * * * * * 2532 91 0 * * * * * * 2352 0 0 R 92 * * * * * * 2592 * * 1065 * * * * 1489 * * * * * 92 0 * * * * * * 2352 0 0 G 93 * * * * * 0 * * * * * * * * * * * * * * 93 230 2764 * 2000 415 * * 2352 1000 0 Q 94 * * * * * * * * * * * * * 248 2664 * * * * * 94 248 2664 * 2585 263 * * 2352 1000 0 S 95 * * * * * 2664 * * * * * 2878 * * * 839 2764 * * * 95 0 * * * * * * 2352 0 0 I 96 * * * * * * * 839 * 1181 * * * * * * * * * * 96 0 * * * * * * 2352 0 0 R 97 * * * * * * * * * * * * 2764 * 525 * 2664 * * * 97 274 2532 * 2000 415 * * 2352 1000 0 L 98 1848 * * * * * * * * 3118 * * 2592 2664 2764 * * 2878 * * 98 0 * * * * * * 2352 0 0 E 99 * * * 3118 * * * * * * * * * * 635 2053 * * * * 99 0 * * 0 * * * 2352 0 0 //