# 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/Gcd10p.hmm.txt # target sequence database: proteomes/Ciona_intestinalis.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Gcd10p [M=300] Accession: PF04189.12 Description: Gcd10p family 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.5e-64 217.9 0.3 1.9e-64 217.6 0.3 1.1 1 tr|F7B480|F7B480_CIOIN Uncharacterized protein OS=Ciona inte ------ inclusion threshold ------ 0.03 13.4 0.0 0.042 12.9 0.0 1.2 1 tr|H2XSX6|H2XSX6_CIOIN tRNA (adenine(58)-N(1))-methyltransfe Domain annotation for each sequence (and alignments): >> tr|F7B480|F7B480_CIOIN Uncharacterized protein OS=Ciona intestinalis OX=7719 GN=LOC100185737 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 217.6 0.3 2.2e-68 1.9e-64 2 271 .. 7 264 .. 6 297 .. 0.91 Alignments for each domain: == domain 1 score: 217.6 bits; conditional E-value: 2.2e-68 Gcd10p 2 IkpnqhvllkLpsenlkivqvkpnttisLgKfgsfplnliigrpygltfeildkreeeeksrlrvvpaaeleaeslaeeeaeeeeee 88 I+ n++v+l+ + +lk v+++ n+ i ++K + f+ ++++g +yg+ f++ + ++ + r + + e e ++ + ++ ++++++ tr|F7B480|F7B480_CIOIN 7 INLNTTVILE-RNSVLKAVKLVANKVIVFEKLR-FKPDKAVGCNYGTVFKVTLTPQRSSPWCKRTIANGEMEITDQDLDSLDTNADD 91 7899******.666*******************.*****************999988888889***999999999988888999999 PP Gcd10p 89 eeardnreiid.dgarQkLtkeeIeeLKkegasagkeiIaklleshtafdqKTaFSqeKYlkrKkkKYlkrftvlpldvsllleyll 174 ++++dnr+++d +g++Q++++e+I e+K ega+ g+ei++ l+e++++f++KT+FSq+KYlk+KkkKYl+++++++++++l+++ + tr|F7B480|F7B480_CIOIN 92 AQGKDNRSLVDtHGKSQTIKRENILEMKGEGAT-GEEIVKCLVENSSSFNEKTSFSQNKYLKKKKKKYLSYIRIQRPNSRLICQLYQ 177 99*********7788******************.***************************************************** PP Gcd10p 175 ekkdaqkilelreetlglllslanvhaggryLvvDdtgGLlvaalaeRmgifessakegtitliheneq.pnlsllkyfnydaaepe 260 e ++++ki+++r et++++l+ an+++g ++ vv++++G+++++++e++g+ +g+++ +h++e+ pnl ++ +fn+ pe tr|F7B480|F7B480_CIOIN 178 E-REPAKICNMRMETMSQILTAANIKHGCNVGVVETCSGVVLGSVLEKLGG------KGCVVNLHNGESpPNLFAISHFNF----PE 253 *.9************************************************......************9***********....43 PP Gcd10p 261 hplkkhlktls 271 +k + ++ tr|F7B480|F7B480_CIOIN 254 PDSDKSDNDIT 264 33333333333 PP >> tr|H2XSX6|H2XSX6_CIOIN tRNA (adenine(58)-N(1))-methyltransferase catalytic subunit TRMT61A OS=Ciona intestinalis OX= # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 12.9 0.0 5e-06 0.042 2 52 .. 10 59 .. 9 63 .. 0.90 Alignments for each domain: == domain 1 score: 12.9 bits; conditional E-value: 5e-06 Gcd10p 2 IkpnqhvllkLpsenlkivqvkpnttisLgKfgsfplnliigrpygltfei 52 +++++ v++ + ++++ + vk+++ is Kfg+++ ++ii+++yg+ f tr|H2XSX6|H2XSX6_CIOIN 10 VEAGDIVIIFMGHDSMFPLYVKKGE-ISQTKFGAIKHDQIINHKYGTKFTC 59 7889999999999999999998776.9*********************986 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (300 nodes) Target sequences: 16678 (5370518 residues searched) Passed MSV filter: 1035 (0.0620578); expected 333.6 (0.02) Passed bias filter: 327 (0.0196067); expected 333.6 (0.02) Passed Vit filter: 27 (0.0016189); expected 16.7 (0.001) Passed Fwd filter: 2 (0.000119918); expected 0.2 (1e-05) Initial search space (Z): 16678 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.13u 0.00s 00:00:00.13 Elapsed: 00:00:00.04 # Mc/sec: 40278.89 // [ok]