# 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/Branchiostoma_floridae.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 1.6e-62 212.0 7.9 3.1e-62 211.1 4.5 2.3 2 tr|C3XZG9|C3XZG9_BRAFL Uncharacterized protein (Fragment) OS ------ inclusion threshold ------ 0.21 11.4 3.8 1.8 8.3 1.2 2.9 3 tr|C3YQF7|C3YQF7_BRAFL Uncharacterized protein (Fragment) OS Domain annotation for each sequence (and alignments): >> tr|C3XZG9|C3XZG9_BRAFL Uncharacterized protein (Fragment) OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_202589 PE= # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 211.1 4.5 2.2e-66 3.1e-62 2 278 .. 2 253 .. 1 286 [. 0.84 2 ? -1.4 0.5 0.11 1.6e+03 70 113 .. 275 318 .. 241 326 .. 0.57 Alignments for each domain: == domain 1 score: 211.1 bits; conditional E-value: 2.2e-66 Gcd10p 2 IkpnqhvllkLpsenlkivqvkpnttisLgKfgsfplnliigrpygltfeildkreeeeksrlrvvpaaeleaeslaeeeaeeeeee 88 I++++ vl++ +++++v+v++n++i +K + f l++++g p+g+ fe+ +k+ + +s+++ tr|C3XZG9|C3XZG9_BRAFL 2 IEEGDQVLIQ-KANVFRLVKVERNKKIFTEKLQ-FFLDNAVGLPLGSKFEVRNKQLF---Q---------VPHDSVDT--------- 65 99********.888*******************.********************943...2.........33445544......... PP Gcd10p 89 eeardnreiiddgarQkLtkeeIeeLKkegasagkeiIaklleshtafdqKTaFSqeKYlkrKkkKYlkrftvlpldvsllleylle 175 r+n++i dd+++QkLtke+ +e+ k+ga+ g+eiI++l +++++f++KT+FSq+KYl++K kKYl+++t+l+++ +ll++++++ tr|C3XZG9|C3XZG9_BRAFL 66 --DRNNEKIQDDNRSQKLTKEDLKEMAKQGAK-GEEIIEQLAQNNANFKDKTSFSQAKYLRKKGKKYLNYITILRPTLRLLCNMYMA 149 ..489***************************.****************************************************** PP Gcd10p 176 kkdaqkilelreetlglllslanvhaggryLvvDdtgGLlvaalaeRmgifessakegtitliheneqpnlsllkyfnydaaepehp 262 k+++ki++lr +tl+++l+++n+ha+++++vvD+++GL+++a++eRmg+ gt++++++++ p + ++fn+ p ++ tr|C3XZG9|C3XZG9_BRAFL 150 -KSPSKICHLRVDTLSQMLTVGNIHAHSKVIVVDTCQGLVLGAVMERMGG------LGTLVQVYHGDFPFRHAYDAFNF----PASF 225 .9************************************************......***********************....4444 PP Gcd10p 263 lkkh....lktlswlqlle........p 278 +++ +++l++++ + + tr|C3XZG9|C3XZG9_BRAFL 226 DETMmpypMNQLNYIHCPQsikdglqrE 253 4433211144444442222333555441 PP == domain 2 score: -1.4 bits; conditional E-value: 0.11 Gcd10p 70 aeleaeslaeeeaeeeeeeee...........ardnreiiddga.rQkLtkeeIee 113 ae + ee++ r+ + ++++++ rQ+ ke+Ie+ tr|C3XZG9|C3XZG9_BRAFL 275 AE------------PNVEEQKvevapedsisaPRTEQLLTEEQEgRQRERKEKIEQ 318 22............222222245555555555777777777666677777777776 PP >> tr|C3YQF7|C3YQF7_BRAFL Uncharacterized protein (Fragment) OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_241798 PE= # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -0.8 0.1 0.072 1e+03 231 254 .. 21 44 .. 13 74 .. 0.73 2 ? 8.3 1.2 0.00012 1.8 232 277 .. 142 187 .. 60 192 .. 0.87 3 ? 7.0 0.1 0.0003 4.3 232 258 .. 166 192 .. 165 213 .. 0.81 Alignments for each domain: == domain 1 score: -0.8 bits; conditional E-value: 0.072 Gcd10p 231 kegtitliheneqpnlsllkyfny 254 ++++it i++ + +nl+ l+++ + tr|C3YQF7|C3YQF7_BRAFL 21 AHNKITTINSRTFANLTQLQQLFL 44 579999999999999998887554 PP == domain 2 score: 8.3 bits; conditional E-value: 0.00012 Gcd10p 232 egtitliheneqpnlsllkyfnydaaepehplkkhlktlswlqlle 277 +++it ih+++ +nls l+y+++ +++ +h+ + + l +l+++ tr|C3YQF7|C3YQF7_BRAFL 142 RNQITYIHHDTFANLSRLQYLDLGHNQITHIHSGVFANLPLLKFFY 187 6899999999999999999999987778888777777777777765 PP == domain 3 score: 7.0 bits; conditional E-value: 0.0003 Gcd10p 232 egtitliheneqpnlsllkyfnydaae 258 +++it+ih++ +nl llk+f +++++ tr|C3YQF7|C3YQF7_BRAFL 166 HNQITHIHSGVFANLPLLKFFYLQSNK 192 69*******************996554 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (300 nodes) Target sequences: 28542 (13248087 residues searched) Passed MSV filter: 1571 (0.0550417); expected 570.8 (0.02) Passed bias filter: 648 (0.0227034); expected 570.8 (0.02) Passed Vit filter: 57 (0.00199706); expected 28.5 (0.001) Passed Fwd filter: 2 (7.00722e-05); expected 0.3 (1e-05) Initial search space (Z): 28542 [actual number of targets] Domain search space (domZ): 2 [number of targets reported over threshold] # CPU time: 0.34u 0.01s 00:00:00.35 Elapsed: 00:00:00.13 # Mc/sec: 30572.51 // [ok]