# 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_1964.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1964 [L=175] Description: # 2111062 # 2111586 # 1 # ID=1_1964;partial=00;start_type=ATG;rbs_motif=GGAGG;rbs_spacer=5-10bp;gc_cont=0.314 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 ------ 0.094 13.1 0.7 0.32 11.4 0.1 2.0 2 PNPase Polyribonucleotide nucleotidyltransferase, RNA bind Domain annotation for each model (and alignments): >> PNPase Polyribonucleotide nucleotidyltransferase, RNA binding domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.4 0.1 1.9e-05 0.32 3 63 .. 50 115 .. 48 119 .. 0.89 2 ? -0.2 0.1 0.083 1.4e+03 22 41 .. 146 165 .. 121 173 .. 0.58 Alignments for each domain: == domain 1 score: 11.4 bits; conditional E-value: 1.9e-05 HHHHHTTTHHHHHHHTTS.....SSHHHHHHHHHHHHHHHHHHHH...HHSTTS-HHHHHHHHHHH CS PNPase 3 eekvaelaeerisealti.....teKqeRyaaldeikekvveafaaeleeedeedekeikeifkal 63 e+++++la+++is+ i +Kq+ ++ +ei+++v + + +l+e d+ +++ i +f++l 23726_FusoPortal_Gene_1964 50 EKEIYALASAQISKSGSIiaqsrANKQASETLNKEIRKEVEALYRGNLDEMDAFSKSVISPVFSDL 115 68999*******9987777767788999999999*****************************988 PP == domain 2 score: -0.2 bits; conditional E-value: 0.083 SHHHHHHHHHHHHHHHHHHH CS PNPase 22 eKqeRyaaldeikekvveaf 41 +++e +a d++ +k+ve + 23726_FusoPortal_Gene_1964 146 DRNEVTTAADKVFKKFVEDA 165 44444445555555555544 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (175 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 897 (0.053674); expected 334.2 (0.02) Passed bias filter: 487 (0.0291407); expected 334.2 (0.02) Passed Vit filter: 43 (0.002573); expected 16.7 (0.001) Passed Fwd filter: 1 (5.98372e-05); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 1 [number of targets reported over threshold] # CPU time: 0.25u 0.25s 00:00:00.50 Elapsed: 00:00:00.34 # Mc/sec: 1496.27 // [ok]