# hmmsearch :: search profile(s) against a sequence 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 HMM file: pfam_list/PCIF1_WW.hmm.txt # target sequence database: proteomes/Trypanosoma_brucei.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: PCIF1_WW [M=172] Accession: PF12237.8 Description: Phosphorylated CTD interacting factor 1 WW domain Scores for complete sequences (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Sequence Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.2e-36 124.0 0.5 1.3e-35 121.5 0.3 1.9 2 tr|Q582D4|Q582D4_TRYB2 Uncharacterized protein OS=Trypanosom 1.6e-12 46.3 0.0 3e-12 45.4 0.0 1.5 1 tr|Q57YM3|Q57YM3_TRYB2 Uncharacterized protein OS=Trypanosom Domain annotation for each sequence (and alignments): >> tr|Q582D4|Q582D4_TRYB2 Uncharacterized protein OS=Trypanosoma brucei brucei (strain 927/4 GUTat10.1) OX=185431 GN=Tb # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 121.5 0.3 3e-39 1.3e-35 16 141 .. 447 578 .. 436 592 .. 0.89 2 ? -0.1 0.0 0.067 2.9e+02 148 172 .] 631 655 .. 625 655 .. 0.89 Alignments for each domain: == domain 1 score: 121.5 bits; conditional E-value: 3e-39 PCIF1_WW 16 leaflsrvfalllrYdallg....eaglqaalpeevfevLkkefgvsfecfAsPlncyfeqycsafpdtDayFGsvGsffdfkpasg 98 e f r+f+lllrY++l+g ++g +aa+p ++++ L + f++++e+fAsPln+++ +cs fpdtD +FGs+Gsffd++ + g tr|Q582D4|Q582D4_TRYB2 447 VEPFFMRLFTLLLRYSSLFGdlgyNQGPHAAVPPAIMQQLCQVFDIQCEAFASPLNAQLPLFCSLFPDTDYFFGSLGSFFDIALTAG 533 567999**************999999************************************************************* PP PCIF1_WW 99 sfeanPPfveevleraaeh.ieklLeaaeees.epLsfvvvvpew 141 fe+nPPfv vl+r + ++++L ++++ + fvvv+p+ tr|Q582D4|Q582D4_TRYB2 534 HFEVNPPFVTAVLQRLEKLlLKDTLPINDSDGaASMLFVVVLPSH 578 ***************8775246789888776636899******65 PP == domain 2 score: -0.1 bits; conditional E-value: 0.067 PCIF1_WW 148 kkleesrykrkevvieakeheyreg 172 ++l+es+y+ ++v+ +a+e y++g tr|Q582D4|Q582D4_TRYB2 631 RALRESPYCLAHVLCSAHESVYVDG 655 7899******************997 PP >> tr|Q57YM3|Q57YM3_TRYB2 Uncharacterized protein OS=Trypanosoma brucei brucei (strain 927/4 GUTat10.1) OX=185431 GN=Tb # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 45.4 0.0 7e-16 3e-12 15 104 .. 251 376 .. 229 411 .. 0.90 Alignments for each domain: == domain 1 score: 45.4 bits; conditional E-value: 7e-16 PCIF1_WW 15 kleaflsrvfalllrYdallgeaglqaalpeevfevLkkefgvsfecfAsPlncyfe.............................. 71 +++ f+ r+ +l lrY+ +l++ +lq + + L+ + ++ +AsP+n+y tr|Q57YM3|Q57YM3_TRYB2 251 YEKCFTLRAATLALRYECCLATGSLQLCADLRLKQHLHANGYRVIDLCASPINAYMGepkegsylvgesraeeksssevndsfigce 337 5678999**************9*****************99999******************************************* PP PCIF1_WW 72 ....qycsafpdtDayFGsvGsffdfkpas..gsfeanP 104 ++csafpdtD yFGs+Gs+++f+ ++ + ++nP tr|Q57YM3|Q57YM3_TRYB2 338 ntpnHFCSAFPDTDCYFGSLGSVLKFDVVQayNTPQINP 376 ************************998776334445555 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (172 nodes) Target sequences: 8561 (4332363 residues searched) Passed MSV filter: 217 (0.0253475); expected 171.2 (0.02) Passed bias filter: 166 (0.0193903); expected 171.2 (0.02) Passed Vit filter: 12 (0.00140171); expected 8.6 (0.001) Passed Fwd filter: 2 (0.000233618); expected 0.1 (1e-05) Initial search space (Z): 8561 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.06u 0.00s 00:00:00.06 Elapsed: 00:00:00.03 # Mc/sec: 24838.88 // [ok]