# 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/zf-GRF.hmm.txt
# target sequence database: proteomes/Ciona_savignyi.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: zf-GRF [M=45]
Accession: PF06839.12
Description: GRF zinc finger
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
8.5e-34 114.8 15.8 2.2e-17 62.3 3.2 3.2 3 tr|H2Z235|H2Z235_CIOSA DNA topoisomerase OS=Ciona savignyi O
1.1e-11 44.0 1.2 3.4e-11 42.4 1.2 1.9 1 tr|H2YY54|H2YY54_CIOSA DNA-(apurinic or apyrimidinic site) l
Domain annotation for each sequence (and alignments):
>> tr|H2Z235|H2Z235_CIOSA DNA topoisomerase OS=Ciona savignyi OX=51511 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? -3.7 0.2 1.5 8.7e+03 22 32 .. 449 459 .. 449 461 .. 0.78
2 ! 60.7 0.9 1.2e-20 6.9e-17 1 44 [. 838 880 .. 838 881 .. 0.96
3 ! 62.3 3.2 3.8e-21 2.2e-17 2 44 .. 909 951 .. 908 952 .. 0.97
Alignments for each domain:
== domain 1 score: -3.7 bits; conditional E-value: 1.5
zf-GRF 22 GRkFYkCpkgk 32
+R+F +C ++
tr|H2Z235|H2Z235_CIOSA 449 TRHFLACCHRD 459
69999998776 PP
== domain 2 score: 60.7 bits; conditional E-value: 1.2e-20
zf-GRF 1 plCkcgrlavlltvrktgpNkGRkFYkCpkgkekqCgFFkWade 44
p+C+c ++av+ltvr++gpN GR+FYkC+k ++ C FF Wad+
tr|H2Z235|H2Z235_CIOSA 838 PMCNCSEMAVVLTVRREGPNTGRQFYKCSKQSG-GCDFFLWADD 880
79******************************8.8*******97 PP
== domain 3 score: 62.3 bits; conditional E-value: 3.8e-21
zf-GRF 2 lCkcgrlavlltvrktgpNkGRkFYkCpkgkekqCgFFkWade 44
+Ckc av++tv+k+gpNkGR FY+C k++ +qCgFF+W+d+
tr|H2Z235|H2Z235_CIOSA 909 MCKCNIQAVQRTVQKDGPNKGRVFYTCDKPRAEQCGFFEWEDA 951
8****************************************97 PP
>> tr|H2YY54|H2YY54_CIOSA DNA-(apurinic or apyrimidinic site) lyase OS=Ciona savignyi OX=51511 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 42.4 1.2 5.9e-15 3.4e-11 1 42 [. 422 470 .. 422 472 .] 0.93
Alignments for each domain:
== domain 1 score: 42.4 bits; conditional E-value: 5.9e-15
zf-GRF 1 plCk.cgrlavlltvrktgpNkGRkFYkCpkgke......kqCgFFkWa 42
plC+ + ++av ++v+k+g N GRkFY+C+ +++ + C +F+W+
tr|H2YY54|H2YY54_CIOSA 422 PLCPgHNEPAVERVVKKEGLNLGRKFYCCARPDGlksnpeARCQYFEWV 470
79**888*************************9999999999******7 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (45 nodes)
Target sequences: 11592 (4231397 residues searched)
Passed MSV filter: 545 (0.0470152); expected 231.8 (0.02)
Passed bias filter: 226 (0.0194962); expected 231.8 (0.02)
Passed Vit filter: 18 (0.0015528); expected 11.6 (0.001)
Passed Fwd filter: 2 (0.000172533); expected 0.1 (1e-05)
Initial search space (Z): 11592 [actual number of targets]
Domain search space (domZ): 2 [number of targets reported over threshold]
# CPU time: 0.05u 0.00s 00:00:00.05 Elapsed: 00:00:00.05
# Mc/sec: 3808.26
//
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