# 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_1025.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1025 [L=145] Description: # 1134843 # 1135277 # 1 # ID=1_1025;partial=00;start_type=ATG;rbs_motif=GGA/GAG/AGG;rbs_spacer=5-10bp;gc_cont=0.241 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- ------ inclusion threshold ------ 0.013 15.4 2.5 0.025 14.5 2.5 1.4 1 DUF3671 Protein of unknown function 0.029 15.1 0.6 0.047 14.4 0.4 1.5 1 Germane Sporulation and spore germination 0.049 12.5 1.1 0.06 12.2 1.1 1.1 1 SCFA_trans Short chain fatty acid transporter 0.083 12.7 0.1 0.11 12.3 0.1 1.4 1 TMEM52 Transmembrane 52 0.26 11.5 2.3 0.32 11.3 0.5 2.0 3 LPP20 LPP20 lipoprotein Domain annotation for each model (and alignments): >> DUF3671 Protein of unknown function # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 14.5 2.5 7.6e-06 0.025 34 88 .. 2 56 .. 1 63 [. 0.85 Alignments for each domain: == domain 1 score: 14.5 bits; conditional E-value: 7.6e-06 DUF3671 34 kkfkkkvlkkyglllilpvllpliglivpilfeakskkslkkkelevlatsiekl 88 +k+kk+ lkk l ++l +++l+++i +++ + ++ k ++ k++ev ++++ ++ 23726_FusoPortal_Gene_1025 2 RKIKKMNLKKINLTIVLAGIVVLLVIITLLMPSREKIKEIEVKKVEVKKEEMVEV 56 589**********************999999888888888888888877777665 PP >> Germane Sporulation and spore germination # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 14.4 0.4 1.4e-05 0.047 2 95 .. 58 143 .. 57 144 .. 0.76 Alignments for each domain: == domain 1 score: 14.4 bits; conditional E-value: 1.4e-05 Germane 2 lYfldadg.t.vpv.rlvrek..seelakalleeLlagpteglrsalpegtkllsvtvkddvatvdlskeflgssseelalas 79 +Y + +d + ++ +++ + +++l+++++e ++++++ ++++l ++ +dd ++ ++++ ++ +e+ l++ 23726_FusoPortal_Gene_1025 58 VYGVAKDSdSpSKYtLTLK-QasTSDLLRTAVEDMVKKYS--------SNSELINIYFSDDRVYYEFNN----KDLSEAFLNA 127 6777565533444533333.34799************766........999******************....5667778889 PP Germane 80 ivntltelpeiekVqf 95 + t +e+++ e++++ 23726_FusoPortal_Gene_1025 128 LQMTTQEITGMEEISL 143 9999999988888876 PP >> SCFA_trans Short chain fatty acid transporter # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 12.2 1.1 1.8e-05 0.06 191 234 .. 11 54 .. 3 72 .. 0.82 Alignments for each domain: == domain 1 score: 12.2 bits; conditional E-value: 1.8e-05 SCFA_trans 191 synliilailivvlplitamlaPkkeevksidkkllkeekeeek 234 nl i+++ ivvl +i+++l+P +e++k+i+ k ++ +kee 23726_FusoPortal_Gene_1025 11 KINLTIVLAGIVVLLVIITLLMPSREKIKEIEVKKVEVKKEEMV 54 6788888888999999999*************998877666654 PP >> TMEM52 Transmembrane 52 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 12.3 0.1 3.4e-05 0.11 14 84 .. 5 77 .. 2 140 .. 0.78 Alignments for each domain: == domain 1 score: 12.3 bits; conditional E-value: 3.4e-05 TMEM52 14 ewvsLwyvwLillivlllLlCgitasCvrfCclrkqqnaqeelpparqpyevtv..iavDsDStlhstvtSys 84 ++++L + L ++ + +++l i+++ + k+ ++++ ++++ evtv +a DsDS+ + t+t + 23726_FusoPortal_Gene_1025 5 KKMNLKKINLTIVLAGIVVLLVIITLLMPSREKIKEIEVKKVEVKKEEMVEVTVygVAKDSDSPSKYTLTLKQ 77 67789999998888888888788887777566667777777777788999***966677999**999999655 PP >> LPP20 LPP20 lipoprotein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -1.3 0.0 0.81 2.7e+03 74 88 .. 38 52 .. 34 64 .. 0.56 2 ? 11.3 0.5 9.5e-05 0.32 44 91 .. 66 112 .. 53 116 .. 0.76 3 ? -2.7 0.0 2.1 7.2e+03 27 40 .. 123 136 .. 118 139 .. 0.65 Alignments for each domain: == domain 1 score: -1.3 bits; conditional E-value: 0.81 LPP20 74 lrgieiveveeledg 88 ++ ie+++ve+++ 23726_FusoPortal_Gene_1025 38 IKEIEVKKVEVKKEE 52 555666666554333 PP == domain 2 score: 11.3 bits; conditional E-value: 9.5e-05 LPP20 44 ksssstqetsaavqnsettnesvsqvvesvlrgieiveveeledgkyy 91 +s s+++ t+++ ++s + v+ +v+++ +++e+++++++ d+++y 23726_FusoPortal_Gene_1025 66 DSPSKYTLTLKQASTSDLLRTAVEDMVKKYSSNSELINIYFS-DDRVY 112 34444444558999999999999999****9********996.55555 PP == domain 3 score: -2.7 bits; conditional E-value: 2.1 LPP20 27 AkqnAlrdiaeqiq 40 A nAl + ++i 23726_FusoPortal_Gene_1025 123 AFLNALQMTTQEIT 136 66677777666664 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (145 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 1540 (0.0921494); expected 334.2 (0.02) Passed bias filter: 747 (0.0446984); expected 334.2 (0.02) Passed Vit filter: 79 (0.00472714); expected 16.7 (0.001) Passed Fwd filter: 5 (0.000299186); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 5 [number of targets reported over threshold] # CPU time: 0.30u 0.32s 00:00:00.62 Elapsed: 00:00:00.38 # Mc/sec: 1109.26 // [ok]