# 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_1863.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1863 [L=67] Description: # 1991764 # 1991964 # -1 # ID=1_1863;partial=00;start_type=ATG;rbs_motif=GGAGG;rbs_spacer=5-10bp;gc_cont=0.303 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 7e-30 102.6 4.0 7.6e-30 102.5 4.0 1.0 1 CSD 'Cold-shock' DNA-binding domain 0.006 16.1 1.5 0.0086 15.6 1.5 1.4 1 OB_RNB Ribonuclease B OB domain Domain annotation for each model (and alignments): >> CSD 'Cold-shock' DNA-binding domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 102.5 4.0 9.1e-34 7.6e-30 1 65 [. 1 64 [. 1 65 [. 0.97 Alignments for each domain: == domain 1 score: 102.5 bits; conditional E-value: 9.1e-34 EEEEEEEEETTTTEEEEEETTSS-EEEEETTTS-STT.TS--STSEEEEEEEECSSCEEEEEEEE CS CSD 1 ltGtVkwfnakkgfGFItredgdkdvFvHvsaiqgdgfrsLqegqeVeFevvegkkgpeAanVtk 65 ++GtVkwfn++kgfGFIt edg+ dvF H+s+iq++gf++L egqeVeFe++eg+kgp+A+n++ 23726_FusoPortal_Gene_1863 1 MKGTVKWFNKEKGFGFITGEDGK-DVFAHFSQIQKEGFKELFEGQEVEFEITEGQKGPQASNIVV 64 79********************9.**************************************985 PP >> OB_RNB Ribonuclease B OB domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 15.6 1.5 1e-06 0.0086 7 47 .. 11 55 .. 3 65 .. 0.82 Alignments for each domain: == domain 1 score: 15.6 bits; conditional E-value: 1e-06 SSS-EEEEECT.TEEEE.....E-HHHHTTS-TT-EEEEEEEESSS CS OB_RNB 7 kkGFGFlipdegkeDif.....ippeqmkkamhGDrVlvritkgdr 47 +kGFGF+ ++ ++D+f i +e +k+ + G V+ +it+g++ 23726_FusoPortal_Gene_1863 11 EKGFGFITGED-GKDVFahfsqIQKEGFKELFEGQEVEFEITEGQK 55 89********8.99**977777888888899999999999998555 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (67 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 284 (0.0169938); expected 334.2 (0.02) Passed bias filter: 231 (0.0138224); expected 334.2 (0.02) Passed Vit filter: 17 (0.00101723); expected 16.7 (0.001) Passed Fwd filter: 2 (0.000119674); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.21u 0.24s 00:00:00.44 Elapsed: 00:00:00.32 # Mc/sec: 608.66 // [ok]