# 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_1153.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1153 [L=328] Description: # 1255626 # 1256609 # 1 # ID=1_1153;partial=00;start_type=ATG;rbs_motif=AGGAG;rbs_spacer=5-10bp;gc_cont=0.263 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.9e-10 40.9 0.6 2.9e-05 24.9 0.1 2.7 2 LytR_C LytR cell envelope-related transcriptional att 0.0093 16.0 0.8 0.0093 16.0 0.8 2.7 3 DUF5469 Family of unknown function (DUF5469) ------ inclusion threshold ------ 0.081 13.3 0.1 0.32 11.4 0.0 2.0 2 F1F0-ATPsyn_F Mitochondrial F1-F0 ATP synthase subunit F of Domain annotation for each model (and alignments): >> LytR_C LytR cell envelope-related transcriptional attenuator # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 24.9 0.1 5.2e-09 2.9e-05 2 83 .. 159 244 .. 158 245 .. 0.73 2 ! 13.7 0.0 1.6e-05 0.088 17 80 .. 262 325 .. 256 327 .. 0.72 Alignments for each domain: == domain 1 score: 24.9 bits; conditional E-value: 5.2e-09 LytR_C 2 vkVeVlNgtgvsGlAarvadaLe...ekGftvgevgnagnadeettivy...reaaaaaakalaaalglgelqedsvkdas.. 76 + V+VlN++g+ G A+++ ++ + + +++++ +++++ ++ +v + +++a ++ ++l+ ++ + +++++ + 23726_FusoPortal_Gene_1153 159 ILVDVLNANGIGGYARKTGELIKstlGMKYNAANYETTQD---QSYVVLndiS---KEKAAEILDKLPEKYFKIKNKSSIPtl 235 669*******************874445556665444444...4777763321...258889999999999666666666599 PP LytR_C 77 ..vtvvlGk 83 ++v++G+ 23726_FusoPortal_Gene_1153 236 anIVVIIGS 244 99*****97 PP == domain 2 score: 13.7 bits; conditional E-value: 1.6e-05 LytR_C 17 arvadaLeekGf.tvgevgnagnadee..ttivyreaaaa.aakalaaalglgelqedsvkdasvtvv 80 ++++++L+++G+ +++ +++++e+ + i y ++++ a ++a+ lg++ ++e+s++++++ ++ 23726_FusoPortal_Gene_1153 262 KEASEKLRKAGYgSISS---QPEKEETeqSIIEY-NKEDYfIALRIAKILGISDMVENSDLENKIGIT 325 6799********55555...55554445488888.332223777**********99999998884443 PP >> DUF5469 Family of unknown function (DUF5469) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 1.2 0.1 0.06 3.4e+02 18 37 .. 18 37 .. 14 53 .. 0.74 2 ! 16.0 0.8 1.7e-06 0.0093 64 134 .. 86 159 .. 76 161 .. 0.87 3 ? -2.4 0.6 0.79 4.4e+03 96 96 .. 257 257 .. 206 297 .. 0.64 Alignments for each domain: == domain 1 score: 1.2 bits; conditional E-value: 0.06 DUF5469 18 lvtvlllflivffffksspl 37 +v++++l+++++f+f+ + 23726_FusoPortal_Gene_1153 18 IVLTIILSILLYFNFRGNNI 37 68899999999999875544 PP == domain 2 score: 16.0 bits; conditional E-value: 1.7e-06 DUF5469 64 vdsiykkIdsL...kpevnavfleneIkkdlndikntygknssdeRykmyaqiakfykmlledKkelksvseni 134 +++ +kI+s k + v eIk d+++++n+ ++n d+Ry + + ++ +k+l+ K+ + +++eni 23726_FusoPortal_Gene_1153 86 YENVLEKINSVvpeKLTRYTVIKSGEIKLDVENARNIPETNIGDRRYILTSSVYAMFKDLYHEKNAVDELNENI 159 5677888898855444456677889**********************************************998 PP == domain 3 score: -2.4 bits; conditional E-value: 0.79 DUF5469 96 n 96 n 23726_FusoPortal_Gene_1153 257 N 257 1 PP >> F1F0-ATPsyn_F Mitochondrial F1-F0 ATP synthase subunit F of fungi # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -2.8 0.0 1.5 8.4e+03 64 80 .. 8 24 .. 6 28 .. 0.77 2 ? 11.4 0.0 5.7e-05 0.32 46 83 .. 209 246 .. 202 254 .. 0.84 Alignments for each domain: == domain 1 score: -2.8 bits; conditional E-value: 1.5 F1F0-ATPsyn_F 64 knasgkPllhlilglll 80 k+ +P+l ++l+++l 23726_FusoPortal_Gene_1153 8 KKKGRAPVLVIVLTIIL 24 56677899999988875 PP == domain 2 score: 11.4 bits; conditional E-value: 5.7e-05 F1F0-ATPsyn_F 46 kakakgllgrykakyfdgknasgkPllhlilgllllgY 83 k+ka+++l+++ +kyf+ kn s+ P l+ i+ ++ 23726_FusoPortal_Gene_1153 209 KEKAAEILDKLPEKYFKIKNKSSIPTLANIVVIIGSEK 246 6688899*********************9999986555 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (328 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 1380 (0.0825754); expected 334.2 (0.02) Passed bias filter: 731 (0.043741); expected 334.2 (0.02) Passed Vit filter: 77 (0.00460747); expected 16.7 (0.001) Passed Fwd filter: 3 (0.000179512); 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: 0.41u 0.35s 00:00:00.76 Elapsed: 00:00:00.45 # Mc/sec: 2118.90 // [ok]