# 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/Monodelphis_domestica.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.1e-69 232.8 0.1 3.1e-69 232.2 0.1 1.3 1 tr|F6XRK5|F6XRK5_MONDO PDX1 C-terminal inhibiting factor 1 O ------ inclusion threshold ------ 0.12 12.2 0.0 0.25 11.2 0.0 1.5 1 tr|F6XUK5|F6XUK5_MONDO Sorting nexin 33 OS=Monodelphis domes Domain annotation for each sequence (and alignments): >> tr|F6XRK5|F6XRK5_MONDO PDX1 C-terminal inhibiting factor 1 OS=Monodelphis domestica OX=13616 GN=PCIF1 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 232.2 0.1 2.9e-73 3.1e-69 1 172 [] 477 652 .. 477 652 .. 0.99 Alignments for each domain: == domain 1 score: 232.2 bits; conditional E-value: 2.9e-73 PCIF1_WW 1 kLkeLyesseeddekleaflsrvfalllrYdallg.....eaglqaalpeevfevLkkefgvsfecfAsPlncyfeqycsafpdtDa 82 kL Ly++s+ dd+ +e fl rv++ll+rY++++g ++glq++lp +vfe+L++ fgvsfecfAsPlncyf+qycsafpdtD+ tr|F6XRK5|F6XRK5_MONDO 477 KLWLLYRYSCIDDSAFERFLPRVWCLLRRYQMMFGvglyeGTGLQGSLPVHVFEALHRLFGVSFECFASPLNCYFRQYCSAFPDTDG 563 7899***********************************99********************************************** PP PCIF1_WW 83 yFGsvGsffdfkpasgsfeanPPfveevleraaehieklLeaaeeesepLsfvvvvpewre..tealkkleesrykrkevvieakeh 167 yFGs+G+++df p sgsfeanPPf+ee+++++++h+eklLe++ epLsf+v++pewr+ t al+++e+sr+kr+++v++a +h tr|F6XRK5|F6XRK5_MONDO 564 YFGSRGPCLDFYPLSGSFEANPPFCEELMDAMVSHFEKLLESS---PEPLSFIVFIPEWRDppTPALTRMERSRFKRHQLVLPAFDH 647 *******************************************...****************99*********************** PP PCIF1_WW 168 eyreg 172 eyr+g tr|F6XRK5|F6XRK5_MONDO 648 EYRSG 652 **986 PP >> tr|F6XUK5|F6XUK5_MONDO Sorting nexin 33 OS=Monodelphis domestica OX=13616 GN=SNX33 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.2 0.0 2.4e-05 0.25 92 123 .. 412 443 .. 401 453 .. 0.87 Alignments for each domain: == domain 1 score: 11.2 bits; conditional E-value: 2.4e-05 PCIF1_WW 92 dfkpasgsfeanPPfveevleraaehieklLe 123 +f+++s sf++ PP++++ l++a++h k+ e tr|F6XUK5|F6XUK5_MONDO 412 AFQAISHSFQLDPPYSSDALNNAISHTGKTYE 443 68999*******************99887765 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (172 nodes) Target sequences: 21272 (11266248 residues searched) Passed MSV filter: 518 (0.0243513); expected 425.4 (0.02) Passed bias filter: 384 (0.0180519); expected 425.4 (0.02) Passed Vit filter: 18 (0.000846183); expected 21.3 (0.001) Passed Fwd filter: 2 (9.40203e-05); expected 0.2 (1e-05) Initial search space (Z): 21272 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.14u 0.01s 00:00:00.15 Elapsed: 00:00:00.07 # Mc/sec: 27682.78 // [ok]