# hmmscan :: search sequence(s) against a profile database # HMMER 3.1b2 (February 2015); http://hmmer.org/ # Copyright (C) 2015 Howard Hughes Medical Institute. # Freely distributed under the GNU General Public License (GPLv3). # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - # query sequence file: AA/23726_FusoPortal_Gene_1436.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1436 [L=456] Description: # 1541344 # 1542711 # 1 # ID=1_1436;partial=00;start_type=ATG;rbs_motif=AGGAG;rbs_spacer=5-10bp;gc_cont=0.277 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 3.2e-42 143.8 28.3 1.9e-22 79.5 7.4 2.7 2 MatE MatE 3.8e-10 39.9 18.1 3.8e-10 39.9 18.1 4.9 4 Polysacc_synt_C Polysaccharide biosynthesis C-terminal domai ------ inclusion threshold ------ 0.085 13.0 0.5 2.2 8.4 0.1 2.4 2 Glycophorin_A Glycophorin A Domain annotation for each model (and alignments): >> MatE MatE # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 79.5 7.4 3.5e-26 1.9e-22 1 161 [] 26 187 .. 26 187 .. 0.99 2 ! 69.6 12.8 4e-23 2.2e-19 23 153 .. 275 408 .. 243 415 .. 0.90 Alignments for each domain: == domain 1 score: 79.5 bits; conditional E-value: 3.5e-26 MatE 1 Pialenllesllslidtllvgrl.gskalAavsialsilsllfvfllglstalttlvgqalGaknfkrakealrqglilllll 82 P++++nl+ l++ +d +++g+ g Aa +ia++i+ + +++l l+++ ++ + +lG++ +++ k+++ ++ +l+++ 23726_FusoPortal_Gene_1436 26 PAIIANLVNALYNVVDQIFIGQRiGYLGNAATNIAFPITTMCLAIGLTLGIGGASNFSLELGKGYPEKSKHTAGTAASTLIII 108 9*********************99*********************************************************** PP MatE 83 sliiallvllfseqilslftqdeevlelakrylrililgipalalqlvlsgilrgagktkvplyislislllniplnyl 161 ++ ++++v +f e+++ f++++++le++++y i+ +gip+l++++ + +r+ g++k ++++++ +++ln +l++l 23726_FusoPortal_Gene_1436 109 GIMLCIVVRIFLEPLMLDFGATDKILEYSMEYTGITSFGIPFLLFSIGVNPLVRADGNAKYSMIAIVTGAILNTILDPL 187 ***************************************************************************9985 PP == domain 2 score: 69.6 bits; conditional E-value: 4e-23 MatE 23 l.gskalAavsialsilsllfvfllglstalttlvgqalGaknfkrakealrqglilllllsliiallvllfseqilslftqd 104 + ++ +A+ +i+++i ++++++lgl +++++ g ++Gakn++r++e++r l++++ ++ i++++ +f++qi+slf+ 23726_FusoPortal_Gene_1436 275 YgSDIPIAVFGIVMKINVIFIAIVLGLVQGAQPIFGFNYGAKNYHRVRETMRLLLKVTFSIATILFIIFQVFPKQIISLFGEG 357 3467899***************************************************************************9 PP MatE 105 ee.vlelakrylrililgipalalqlvlsgilrgagktkvplyislisl.l 153 ++ e+a +y+ri + +i ++++q+ +++++ ++gk+ ++++sl + 23726_FusoPortal_Gene_1436 358 DKlYFEFATKYMRIFLAFISLNSIQISIATFFPSIGKAIKGAIVSLTKQlI 408 99788****************************************988744 PP >> Polysacc_synt_C Polysaccharide biosynthesis C-terminal domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -3.5 8.9 1.7 9.2e+03 31 75 .. 27 70 .. 24 130 .. 0.58 2 ! 39.9 18.1 6.8e-14 3.8e-10 4 119 .. 143 278 .. 140 302 .. 0.73 3 ? -3.5 7.0 1.7 9.2e+03 92 138 .. 291 343 .. 246 348 .. 0.55 4 ! 10.9 4.0 6.1e-05 0.34 7 83 .. 371 451 .. 366 454 .. 0.73 Alignments for each domain: == domain 1 score: -3.5 bits; conditional E-value: 1.7 Polysacc_synt_C 31 alkalvigalvklilnllliplfgivGaaiatvlallvvavlnly 75 a++a+++ al +++ +++ ++g++G +at +a+ ++++++ + 23726_FusoPortal_Gene_1436 27 AIIANLVNALYNVVDQIFIGQRIGYLG-NAATNIAFPITTMCLAI 70 678888888888888888889999999.44555555555544433 PP == domain 2 score: 39.9 bits; conditional E-value: 6.8e-14 Polysacc_synt_C 4 ilalsiiflslstvlssiLqglgrqkialkalvigalvklilnllli..plfgivGaaiatvlallvvavlnlyalrrllgik 84 i +++i+fl +s+ ++ + + g k+ ++a+v ga+++ il l++ + +gi Gaa+atv++++v+a+l+l++ r +k 23726_FusoPortal_Gene_1436 143 ITSFGIPFLLFSIGVNPLVRADGNAKYSMIAIVTGAILNTILDPLFMfvYNWGIAGAAWATVISQIVSALLLLIYFPRFKSVK 225 779****************************************999988999**************************99999 PP Polysacc_synt_C 85 l......llrrllkpllaalvmgivvylllllllglllla.............a 119 + ++ + lk +++ + + + y + ++++ +++++ 23726_FusoPortal_Gene_1436 226 FslndfiPQLHYLKRIISLGFASFI-YQFSNMIVLVTTNNllkiygknsiygsD 278 9878855333333544444444444.4455555555544444455555555551 PP == domain 3 score: -3.5 bits; conditional E-value: 1.7 Polysacc_synt_C 92 kpllaalvmgiv..vylllllllglllla...........alalllavlvgalvYlllll 138 ++++a+v+g+v + ++ + + ++ lll+v + ++ l++++ 23726_FusoPortal_Gene_1436 291 NVIFIAIVLGLVqgAQPIFGF-------NygaknyhrvreTMRLLLKVTFSIATILFIIF 343 334444444444333333333.......03334455777777888888777777777665 PP == domain 4 score: 10.9 bits; conditional E-value: 6.1e-05 Polysacc_synt_C 7 lsiiflslstvlssiLqglgrqkialkalvigalvklilnllli....plfgivGaaiatvlallvvavlnlyalrrllgi 83 + + f+sl+++ si + +a+k +++++ +li+ ++l+ +fg+ G+++at l+ l+++ + +++l ++l++ 23726_FusoPortal_Gene_1436 371 IFLAFISLNSIQISIATFFPSIGKAIKGAIVSLTKQLIVLFPLLltlpRFFGVEGVIYATPLTDLIAFTVAIIFLTNELKH 451 445566666666666666666666777777777766666666665563577***********************9998875 PP >> Glycophorin_A Glycophorin A # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 8.4 0.1 0.0004 2.2 46 77 .. 89 120 .. 76 124 .. 0.89 2 ? 2.2 0.1 0.035 1.9e+02 46 68 .. 324 346 .. 312 354 .. 0.77 Alignments for each domain: == domain 1 score: 8.4 bits; conditional E-value: 0.0004 XXXXSSSSSSS-TTHHHHHHHHHHHHHHHHHH CS Glycophorin_A 46 gereqlvhdFselvitliifgvmAgvigtill 77 g +e+ +h + tlii+g+m ++ i+l 23726_FusoPortal_Gene_1436 89 GYPEKSKHTAGTAASTLIIIGIMLCIVVRIFL 120 8899999999999*****************98 PP == domain 2 score: 2.2 bits; conditional E-value: 0.035 XXXXSSSSSSS-TTHHHHHHHHH CS Glycophorin_A 46 gereqlvhdFselvitliifgvm 68 +r l+ Fs + i iif v 23726_FusoPortal_Gene_1436 324 TMRLLLKVTFSIATILFIIFQVF 346 378888999***********997 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (456 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 699 (0.0418262); expected 334.2 (0.02) Passed bias filter: 246 (0.01472); expected 334.2 (0.02) Passed Vit filter: 16 (0.000957396); expected 16.7 (0.001) Passed Fwd filter: 6 (0.000359023); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 3 [number of targets reported over threshold] # CPU time: 0.29u 0.24s 00:00:00.53 Elapsed: 00:00:00.31 # Mc/sec: 4276.15 // [ok]