# 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/Tetrahymena_thermophila.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 4.4e-45 154.0 2.3 4.4e-45 154.0 2.3 2.1 2 tr|Q23AF0|Q23AF0_TETTS Phosphorylated CTD-interacting factor ------ inclusion threshold ------ 0.11 12.7 0.1 0.22 11.7 0.1 1.5 1 tr|Q23IA0|Q23IA0_TETTS Heat shock 70 kDa protein OS=Tetrahym Domain annotation for each sequence (and alignments): >> tr|Q23AF0|Q23AF0_TETTS Phosphorylated CTD-interacting factor 1 OS=Tetrahymena thermophila (strain SB210) OX=312017 G # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 0.9 0.1 0.035 4.7e+02 6 53 .. 134 182 .. 130 188 .. 0.67 2 ! 154.0 2.3 3.2e-49 4.4e-45 9 171 .. 198 359 .. 191 360 .. 0.97 Alignments for each domain: == domain 1 score: 0.9 bits; conditional E-value: 0.035 PCIF1_WW 6 yesseeddekleaflsrvfalllrYdallg.eaglqaalpeevfevLkk 53 y+++ +++++++ s +l rY++++ + +++++ +eev ++L++ tr|Q23AF0|Q23AF0_TETTS 134 YKQKLSNADEYSFNISDYNMLQQRYQNFQTiQDEQDQSDQEEVNQLLSQ 182 554444444444444455566689*999987777888888888888876 PP == domain 2 score: 154.0 bits; conditional E-value: 3.2e-49 PCIF1_WW 9 seeddekleaflsrvfalllrYdallgeaglqaalpeevfevLkkefgvsfecfAsPlncyfeqycsafpdtDayFGsvGsff.dfk 94 ++ ++k++++++++f++l++Yd + ++g+q++l++evf++Lk+ +++++e+fAsP+n ++e+y+s f + D+yFGs+G+f ++ tr|Q23AF0|Q23AF0_TETTS 198 GNNIAHKDTIMNQKIFLTLFWYDYIGIQNGQQWSLNSEVFDLLKQFLNINTEVFASPFNRNLENYFSLF-ESDKYFGSFGNFNkNYL 283 56788999*************************************************************.99***********999* PP PCIF1_WW 95 pasgsfeanPPfveevleraaehieklLeaaeeesepLsfvvvvpewretealkkleesrykrkevvieakeheyre 171 +++++f+anPPf++++++++a++i ++Le ++++++++ +v+v+p w++++ + +l++s+y+ +e+ + +++h+y++ tr|Q23AF0|Q23AF0_TETTS 284 NIQQNFQANPPFIDNLFTHFAAQILQILEINTQNNREIGCVIVFP-WQDNQGYYQLQNSDYFIDEIELLKNAHYYTD 359 *********************************************.*****************************97 PP >> tr|Q23IA0|Q23IA0_TETTS Heat shock 70 kDa protein OS=Tetrahymena thermophila (strain SB210) OX=312017 GN=TTHERM_01251 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.7 0.1 1.6e-05 0.22 106 162 .. 357 413 .. 352 420 .. 0.90 Alignments for each domain: == domain 1 score: 11.7 bits; conditional E-value: 1.6e-05 PCIF1_WW 106 fveevleraaehieklLeaaeeesepLsfvvvvpewretealkkleesrykrkevvi 162 f + ++e++ +++e+l++++e + e++ f+++v + e+ +lk+ + +++ ++v + tr|Q23IA0|Q23IA0_TETTS 357 FFQTLFENIKNKVEQLIKQTEAKGEKVNFIFMVGGFSESPFLKQEIKNKFETDKVQV 413 788999************************************999999999887654 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (172 nodes) Target sequences: 26971 (16912921 residues searched) Passed MSV filter: 1420 (0.0526491); expected 539.4 (0.02) Passed bias filter: 348 (0.0129027); expected 539.4 (0.02) Passed Vit filter: 31 (0.00114938); expected 27.0 (0.001) Passed Fwd filter: 2 (7.41537e-05); expected 0.3 (1e-05) Initial search space (Z): 26971 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.19u 0.01s 00:00:00.20 Elapsed: 00:00:00.10 # Mc/sec: 29090.22 // [ok]