# /hgtech/tools/solaris8/bin/fasta34_t -T 8 -b50 -d10 -E0.01 -H -Ohj02221.fasta.nr -Q hj02221.ptfa /cdna2/lib/nr/nr 2 FASTA searches a protein or DNA sequence data bank version 34.26.5 April 26, 2007 Please cite: W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448 hj02221, 144 aa vs /cdna2/lib/nr/nr library 2362217958 residues in 6843189 sequences statistics sampled from 60000 to 6841719 sequences Expectation_n fit: rho(ln(x))= 4.5417+/-0.000177; mu= 8.6147+/- 0.010 mean_var=52.8613+/-10.257, 0's: 37 Z-trim: 49 B-trim: 0 in 0/66 Lambda= 0.176403 FASTA (3.5 Sept 2006) function [optimized, BL50 matrix (15:-5)] ktup: 2 join: 36, opt: 24, open/ext: -10/-2, width: 16 The best scores are: opt bits E(6843189) gi|62087696|dbj|BAD92295.1| HLA-DPA1 protein varia ( 144) 963 252.3 1.6e-65 gi|14602923|gb|AAH09956.1| HLA-DPA1 protein [Homo ( 260) 756 199.8 1.8e-49 gi|123229023|emb|CAM25763.1| major histocompatibil ( 209) 738 195.2 3.7e-48 gi|122204|sp|P20036|HA2Q_HUMAN HLA class II histoc ( 260) 738 195.2 4.4e-48 gi|114606824|ref|XP_518390.2| PREDICTED: similar t ( 260) 734 194.2 8.9e-48 gi|124244243|gb|ABM92287.1| MHC class II antigen [ ( 269) 732 193.7 1.3e-47 gi|125742997|gb|ABN54701.1| MHC class II antigen [ ( 269) 731 193.5 1.5e-47 gi|167717358|gb|ABZ91892.1| MHC class II antigen [ ( 269) 704 186.6 1.8e-45 gi|187264159|emb|CAQ15934.1| MHC class II DP alpha ( 260) 702 186.1 2.5e-45 gi|187264161|emb|CAQ15935.1| MHC class II DP alpha ( 260) 702 186.1 2.5e-45 gi|125488984|gb|ABN42653.1| MHC class II antigen D ( 262) 702 186.1 2.5e-45 gi|109452208|dbj|BAE96548.1| major histocompatibil ( 260) 699 185.3 4.3e-45 gi|124244247|gb|ABM92289.1| MHC class II antigen [ ( 260) 698 185.0 5.1e-45 gi|124244251|gb|ABM92291.1| MHC class II antigen [ ( 269) 698 185.1 5.2e-45 gi|124244253|gb|ABM92292.1| MHC class II antigen [ ( 260) 693 183.8 1.2e-44 gi|125742999|gb|ABN54702.1| MHC class II antigen [ ( 260) 692 183.5 1.5e-44 gi|125488982|gb|ABN42652.1| MHC class II antigen D ( 260) 687 182.2 3.5e-44 gi|125995307|dbj|BAF47200.1| MHC class II DPA [Mac ( 260) 682 181.0 8.5e-44 gi|124244249|gb|ABM92290.1| MHC class II antigen [ ( 260) 681 180.7 1e-43 gi|125995302|dbj|BAF47198.1| MHC class II DPA [Mac ( 260) 679 180.2 1.4e-43 gi|125995305|dbj|BAF47199.1| MHC class II DPA [Mac ( 260) 679 180.2 1.4e-43 gi|109452204|dbj|BAE96546.1| major histocompatibil ( 260) 677 179.7 2.1e-43 gi|109452202|dbj|BAE96545.1| major histocompatibil ( 260) 671 178.2 5.9e-43 gi|124244245|gb|ABM92288.1| MHC class II antigen [ ( 254) 666 176.9 1.4e-42 gi|125488976|gb|ABN42649.1| MHC class II antigen D ( 260) 664 176.4 2e-42 gi|125488978|gb|ABN42650.1| MHC class II antigen D ( 260) 661 175.6 3.5e-42 gi|167717356|gb|ABZ91891.1| MHC class II antigen [ ( 260) 656 174.4 8.4e-42 gi|125488980|gb|ABN42651.1| MHC class II antigen D ( 260) 654 173.8 1.2e-41 gi|109452206|dbj|BAE96547.1| major histocompatibil ( 260) 630 167.7 8.2e-40 gi|5381295|gb|AAD42928.1| MHC class II antigen [Ho ( 93) 620 164.9 2.1e-39 gi|3757788|gb|AAC64233.1| MHC class II antigen [Ho ( 108) 617 164.2 4e-39 gi|5381293|gb|AAD42927.1| MHC class II antigen [Ho ( 93) 597 159.0 1.2e-37 gi|6002597|gb|AAF00051.1|AF092049_1 MHC class II a ( 88) 577 153.9 4e-36 gi|758100|emb|CAA25143.1| SB classII histocompatib ( 233) 569 152.2 3.5e-35 gi|5713148|gb|AAD47826.1| MHC class II HLA-DPA1 an ( 86) 555 148.3 1.9e-34 gi|123229022|emb|CAM25762.1| major histocompatibil ( 212) 559 149.6 1.9e-34 gi|3660654|gb|AAC61669.1| MHC class II antigen [Ho ( 81) 539 144.2 3e-33 gi|2795772|gb|AAB97110.1| MHC class II HLA-DPA1 an ( 81) 528 141.4 2.1e-32 gi|163570716|gb|ABY27081.1| MHC class II antigen [ ( 81) 528 141.4 2.1e-32 gi|20218975|dbj|BAB90979.1| major histocompatibili ( 254) 533 143.0 2.2e-32 gi|13448662|gb|AAK27152.1|AF346471_1 MHC class II ( 81) 523 140.2 5.1e-32 gi|51011370|gb|AAT92096.1| MHC class II antigen [H ( 81) 521 139.7 7.2e-32 gi|47935047|gb|AAT39912.1| MHC class II antigen [H ( 80) 514 137.9 2.5e-31 gi|49617545|gb|AAT67468.1| MHC class II antigen [H ( 81) 513 137.6 3e-31 gi|51011372|gb|AAT92097.1| MHC class II antigen [H ( 81) 503 135.1 1.7e-30 gi|82658452|gb|ABB88407.1| MHC class II antigen [H ( 81) 501 134.6 2.5e-30 gi|5106401|gb|AAD39684.1|AF074847_1 MHC class II a ( 74) 493 132.5 9.4e-30 gi|47935057|gb|AAT39917.1| MHC class II antigen [H ( 80) 488 131.3 2.4e-29 gi|5106403|gb|AAD39685.1|AF074848_1 MHC class II a ( 74) 475 127.9 2.2e-28 gi|2583207|gb|AAB82723.1| MHC class II DPA1 antige ( 63) 417 113.1 5.5e-24 >>gi|62087696|dbj|BAD92295.1| HLA-DPA1 protein variant [ (144 aa) initn: 963 init1: 963 opt: 963 Z-score: 1331.6 bits: 252.3 E(): 1.6e-65 Smith-Waterman score: 963; 100.000% identity (100.000% similar) in 144 aa overlap (1-144:1-144) 10 20 30 40 50 60 hj0222 RPHNMRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFE :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|620 RPHNMRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFE 10 20 30 40 50 60 70 80 90 100 110 120 hj0222 FDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHTQAANG :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|620 FDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHTQAANG 70 80 90 100 110 120 130 140 hj0222 TAYLCLFLCSPTGRDERASLPPSD :::::::::::::::::::::::: gi|620 TAYLCLFLCSPTGRDERASLPPSD 130 140 >>gi|14602923|gb|AAH09956.1| HLA-DPA1 protein [Homo sapi (260 aa) initn: 750 init1: 750 opt: 756 Z-score: 1043.2 bits: 199.8 E(): 1.8e-49 Smith-Waterman score: 756; 92.126% identity (93.701% similar) in 127 aa overlap (5-131:1-127) 10 20 30 40 50 60 hj0222 RPHNMRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFE :::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|146 MRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFE 10 20 30 40 50 70 80 90 100 110 120 hj0222 FDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHTQAANG ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|146 FDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHTQAAND 60 70 80 90 100 110 130 140 hj0222 TAYLCLFLCSPTGRDERASLPPSD . .: : gi|146 PPEVTVFPKEPVELGQPNTLICHIDRFFPPVLNVTWLCNGEPVTEGVAESLFLPRTDYSF 120 130 140 150 160 170 >>gi|123229023|emb|CAM25763.1| major histocompatibility (209 aa) initn: 732 init1: 732 opt: 738 Z-score: 1019.8 bits: 195.2 E(): 3.7e-48 Smith-Waterman score: 738; 89.764% identity (93.701% similar) in 127 aa overlap (5-131:1-127) 10 20 30 40 50 60 hj0222 RPHNMRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFE :::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|123 MRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFE 10 20 30 40 50 70 80 90 100 110 120 hj0222 FDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHTQAANG :::::.::::::::::::::::::.::::::::::::::::::::::::::::::::.: gi|123 FDEDEMFYVDLDKKETVWHLEEFGQAFSFEAQGGLANIAILNNNLNTLIQRSNHTQATND 60 70 80 90 100 110 130 140 hj0222 TAYLCLFLCSPTGRDERASLPPSD . .: : gi|123 PPEVTVFPKEPVELGQPNTLICHIDKFFPPVLNVTWLCNGELVTEGVAESLFLPRTDYSF 120 130 140 150 160 170 >>gi|122204|sp|P20036|HA2Q_HUMAN HLA class II histocompa (260 aa) initn: 732 init1: 732 opt: 738 Z-score: 1018.5 bits: 195.2 E(): 4.4e-48 Smith-Waterman score: 738; 89.764% identity (93.701% similar) in 127 aa overlap (5-131:1-127) 10 20 30 40 50 60 hj0222 RPHNMRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFE :::::::::::::::::::::::::::::::::::::::::::::::::::::::: gi|122 MRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFE 10 20 30 40 50 70 80 90 100 110 120 hj0222 FDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHTQAANG :::::.::::::::::::::::::.::::::::::::::::::::::::::::::::.: gi|122 FDEDEMFYVDLDKKETVWHLEEFGQAFSFEAQGGLANIAILNNNLNTLIQRSNHTQATND 60 70 80 90 100 110 130 140 hj0222 TAYLCLFLCSPTGRDERASLPPSD . .: : gi|122 PPEVTVFPKEPVELGQPNTLICHIDKFFPPVLNVTWLCNGELVTEGVAESLFLPRTDYSF 120 130 140 150 160 170 >>gi|114606824|ref|XP_518390.2| PREDICTED: similar to HL (260 aa) initn: 754 init1: 728 opt: 734 Z-score: 1013.0 bits: 194.2 E(): 8.9e-48 Smith-Waterman score: 734; 88.976% identity (92.913% similar) in 127 aa overlap (5-131:1-127) 10 20 30 40 50 60 hj0222 RPHNMRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFE ::::::::::::::.::::::::::::::::::::::::::.:::::::::::::: gi|114 MRPEDRMFHIRAVIFRALSLAFLLSLRGAGAIKADHVSTYATFVQTHRPTGEFMFE 10 20 30 40 50 70 80 90 100 110 120 hj0222 FDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHTQAANG :::::.:::::::::::::::::::::::::::::::::::::::: :::::::::::: gi|114 FDEDEMFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNILIQRSNHTQAAND 60 70 80 90 100 110 130 140 hj0222 TAYLCLFLCSPTGRDERASLPPSD . .: : gi|114 PPEVTVFPKEPVELGQPNTLICHIDKFFPPVLNVTWLCNGEPVTEGVAESLFLPRTDYSF 120 130 140 150 160 170 >>gi|124244243|gb|ABM92287.1| MHC class II antigen [Maca (269 aa) initn: 751 init1: 725 opt: 732 Z-score: 1010.0 bits: 193.7 E(): 1.3e-47 Smith-Waterman score: 732; 80.000% identity (88.571% similar) in 140 aa overlap (1-140:6-145) 10 20 30 40 50 hj0222 RPHNMRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTG ::::. ::::::. ::..::.:::::::::::::::::::::::::::::::::: gi|124 MDINYRPHNVCPEDRMFQTRAIVLRTLSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTG 10 20 30 40 50 60 60 70 80 90 100 110 hj0222 EFMFEFDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHT ::::::::::::::::::::::::::::::::::::::::::::::::::: :::::.: gi|124 EFMFEFDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNITIQRSNYT 70 80 90 100 110 120 120 130 140 hj0222 QAANGTAYLCLFLCSPTGRDERASLPPSD :::: . .: :.. . .: gi|124 QAANDPPEVTVFPKEPVALGQPNTLICHIDKFFPPVLNVTWLCNGEPVTEGVAESLFLPR 130 140 150 160 170 180 >>gi|125742997|gb|ABN54701.1| MHC class II antigen [Maca (269 aa) initn: 751 init1: 725 opt: 731 Z-score: 1008.6 bits: 193.5 E(): 1.5e-47 Smith-Waterman score: 731; 84.733% identity (90.840% similar) in 131 aa overlap (1-131:6-136) 10 20 30 40 50 hj0222 RPHNMRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTG ::::. ::::::. ::..::.:::::::::::::::::::::::::::::::::: gi|125 MDINYRPHNVCPEDRMFQTRAIVLRTLSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTG 10 20 30 40 50 60 60 70 80 90 100 110 hj0222 EFMFEFDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHT ::::::::::::::::::::::::::::::::::::::::::::::::::: :::::.: gi|125 EFMFEFDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNITIQRSNYT 70 80 90 100 110 120 120 130 140 hj0222 QAANGTAYLCLFLCSPTGRDERASLPPSD :::: . .: : gi|125 QAANDPPEVTVFPKEPVELGQPNILICHIDKFFPPVLNVTWLCNGQPATEGVAESLFLPR 130 140 150 160 170 180 >>gi|167717358|gb|ABZ91892.1| MHC class II antigen [Maca (269 aa) initn: 724 init1: 698 opt: 704 Z-score: 971.5 bits: 186.6 E(): 1.8e-45 Smith-Waterman score: 704; 81.679% identity (90.840% similar) in 131 aa overlap (1-131:6-136) 10 20 30 40 50 hj0222 RPHNMRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTG ::::. ::::::. ::..::.:::::::::::::::::::::::::::::::::: gi|167 MDINYRPHNVCPEDRMFQTRAIVLRTLSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTG 10 20 30 40 50 60 60 70 80 90 100 110 hj0222 EFMFEFDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHT ::::::::::.::::::::::::::::::.:.:::::::::::::::.::: :::::.: gi|167 EFMFEFDEDEMFYVDLDKKETVWHLEEFGQAISFEAQGGLANIAILNHNLNITIQRSNYT 70 80 90 100 110 120 120 130 140 hj0222 QAANGTAYLCLFLCSPTGRDERASLPPSD :::: . .: : gi|167 QAANDPPEVTVFPKEPVELGQPNTLICHIDKFFPPVLNVTWLCNGEPVTEGVAESLFLPR 130 140 150 160 170 180 >>gi|187264159|emb|CAQ15934.1| MHC class II DP alpha cha (260 aa) initn: 720 init1: 694 opt: 702 Z-score: 969.0 bits: 186.1 E(): 2.5e-45 Smith-Waterman score: 702; 85.039% identity (90.551% similar) in 127 aa overlap (5-131:1-127) 10 20 30 40 50 60 hj0222 RPHNMRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFE ::::::::. ::::::.:::::::::::::::::::::::: ::::::::::.::: gi|187 MRPEDRMFQTRAVILRTLSLAFLLSLRGAGAIKADHVSTYAMFVQTHRPTGEYMFE 10 20 30 40 50 70 80 90 100 110 120 hj0222 FDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHTQAANG :::::::::::::::::::::::::::::::::::::::::::::: :.:::.::::: gi|187 FDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNITIRRSNYTQAAND 60 70 80 90 100 110 130 140 hj0222 TAYLCLFLCSPTGRDERASLPPSD . .: : gi|187 PPEVTMFPKEPVELGQPNTLICHIDKFFPPVLNATWLCNGQPVTEGVAESLFLPRTDYSF 120 130 140 150 160 170 >>gi|187264161|emb|CAQ15935.1| MHC class II DP alpha cha (260 aa) initn: 720 init1: 694 opt: 702 Z-score: 969.0 bits: 186.1 E(): 2.5e-45 Smith-Waterman score: 702; 85.039% identity (90.551% similar) in 127 aa overlap (5-131:1-127) 10 20 30 40 50 60 hj0222 RPHNMRPEDRMFHIRAVILRALSLAFLLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFE ::::::::. ::::::.:::::::::::::::::::::::: ::::::::::.::: gi|187 MRPEDRMFQTRAVILRTLSLAFLLSLRGAGAIKADHVSTYAMFVQTHRPTGEYMFE 10 20 30 40 50 70 80 90 100 110 120 hj0222 FDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNTLIQRSNHTQAANG :::::::::::::::::::::::::::::::::::::::::::::: :.:::.::::: gi|187 FDEDEQFYVDLDKKETVWHLEEFGRAFSFEAQGGLANIAILNNNLNITIRRSNYTQAAND 60 70 80 90 100 110 130 140 hj0222 TAYLCLFLCSPTGRDERASLPPSD . .: : gi|187 PPEVTMFPKEPVELGQPNTLICHIDKFFPPVLNVTWLCNGQPVTEGVAESLFLPRTDYSF 120 130 140 150 160 170 144 residues in 1 query sequences 2362217958 residues in 6843189 library sequences Tcomplib [34.26] (8 proc) start: Tue Aug 12 15:01:30 2008 done: Tue Aug 12 15:04:31 2008 Total Scan time: 562.050 Total Display time: 0.020 Function used was FASTA [version 34.26.5 April 26, 2007]