# 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/Ornithorhynchus_anatinus.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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 4.7e-36 122.9 19.4 2.4e-18 66.2 4.0 3.4 3 tr|F6Z0N0|F6Z0N0_ORNAN DNA topoisomerase OS=Ornithorhynchus 1e-17 64.2 7.2 1.7e-17 63.5 3.0 2.8 2 tr|F6Q5A6|F6Q5A6_ORNAN Uncharacterized protein OS=Ornithorhy 7.8e-17 61.4 1.2 1.5e-16 60.4 1.2 1.5 1 tr|F6QYC1|F6QYC1_ORNAN Uncharacterized protein OS=Ornithorhy 9.4e-16 57.9 1.2 2.1e-15 56.8 1.2 1.6 1 tr|F7EIF0|F7EIF0_ORNAN Uncharacterized protein OS=Ornithorhy 4.4e-14 52.6 1.2 1e-13 51.4 1.2 1.7 1 tr|F6PMP6|F6PMP6_ORNAN Uncharacterized protein OS=Ornithorhy 1.3e-11 44.7 2.9 1.3e-11 44.7 2.9 3.7 3 tr|F6VJ76|F6VJ76_ORNAN Zinc finger CCHC-type containing 4 OS Domain annotation for each sequence (and alignments): >> tr|F6Z0N0|F6Z0N0_ORNAN DNA topoisomerase OS=Ornithorhynchus anatinus OX=9258 GN=TOP3A PE=3 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -1.3 0.3 0.83 3e+03 3 16 .. 599 613 .. 597 616 .. 0.75 2 ! 65.7 2.1 9.8e-22 3.6e-18 1 44 [. 755 795 .. 755 796 .. 0.96 3 ! 66.2 4.0 6.6e-22 2.4e-18 2 45 .] 836 879 .. 835 879 .. 0.97 Alignments for each domain: == domain 1 score: -1.3 bits; conditional E-value: 0.83 zf-GRF 3 Ck.cgrlavlltvrk 16 C+ c + vl+t ++ tr|F6Z0N0|F6Z0N0_ORNAN 599 CPqCNKDMVLKTKKN 613 888889999988864 PP == domain 2 score: 65.7 bits; conditional E-value: 9.8e-22 zf-GRF 1 plCkcgrlavlltvrktgpNkGRkFYkCpkgkekqCgFFkWade 44 ++C+cg++a lltvrk+gpN+GR+FYkC +g C+FF Wad+ tr|F6Z0N0|F6Z0N0_ORNAN 755 VMCNCGQEALLLTVRKDGPNQGRQFYKCGAGA---CNFFLWADQ 795 69*****************************9...********7 PP == domain 3 score: 66.2 bits; conditional E-value: 6.6e-22 zf-GRF 2 lCkcgrlavlltvrktgpNkGRkFYkCpkgkekqCgFFkWadek 45 C c ++a +++v+k+gpNkGR+F++C k++e+qCgFF+Wade+ tr|F6Z0N0|F6Z0N0_ORNAN 836 VCMCNQPAITRVVQKDGPNKGREFHTCQKPREQQCGFFQWADEN 879 6*****************************************96 PP >> tr|F6Q5A6|F6Q5A6_ORNAN Uncharacterized protein OS=Ornithorhynchus anatinus OX=9258 GN=ERI2 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 1.5 0.1 0.11 3.8e+02 31 43 .. 142 155 .. 139 157 .. 0.79 2 ! 63.5 3.0 4.6e-21 1.7e-17 1 43 [. 603 649 .. 603 651 .. 0.95 Alignments for each domain: == domain 1 score: 1.5 bits; conditional E-value: 0.11 zf-GRF 31 gke.kqCgFFkWad 43 +e k+C F W d tr|F6Q5A6|F6Q5A6_ORNAN 142 TSEvKSCAFVTWSD 155 455699******98 PP == domain 2 score: 63.5 bits; conditional E-value: 4.6e-21 zf-GRF 1 plCkcgrlavlltvrktgpNkGRkFYkCpkgke....kqCgFFkWad 43 plC+cgr+a++l+v+++gpN+GR+FY Cp+gk k+C +FkW+ tr|F6Q5A6|F6Q5A6_ORNAN 603 PLCNCGRRAKRLVVSNNGPNRGRAFYSCPVGKSkgngKSCSYFKWEK 649 79*****************************999999********96 PP >> tr|F6QYC1|F6QYC1_ORNAN Uncharacterized protein OS=Ornithorhynchus anatinus OX=9258 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 60.4 1.2 4.2e-20 1.5e-16 1 44 [. 42 85 .. 42 86 .. 0.97 Alignments for each domain: == domain 1 score: 60.4 bits; conditional E-value: 4.2e-20 zf-GRF 1 plCkcgrlavlltvrktgpNkGRkFYkCpkgkekqCgFFkWade 44 plC + ++ +l v+k+gpNkGR FY+C +k qC+FFkW de tr|F6QYC1|F6QYC1_ORNAN 42 PLCRHNQPTKLVMVKKEGPNKGRLFYTCDSPKADQCNFFKWFDE 85 79****************************************98 PP >> tr|F7EIF0|F7EIF0_ORNAN Uncharacterized protein OS=Ornithorhynchus anatinus OX=9258 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 56.8 1.2 5.8e-19 2.1e-15 1 44 [. 529 572 .. 529 573 .. 0.97 Alignments for each domain: == domain 1 score: 56.8 bits; conditional E-value: 5.8e-19 zf-GRF 1 plCkcgrlavlltvrktgpNkGRkFYkCpkgkekqCgFFkWade 44 plC + ++ +l v+k+gpNkGR FY+C +k qC+FFkW de tr|F7EIF0|F7EIF0_ORNAN 529 PLCRHNQPTKLVMVKKEGPNKGRLFYTCDSPKADQCNFFKWFDE 572 79****************************************98 PP >> tr|F6PMP6|F6PMP6_ORNAN Uncharacterized protein OS=Ornithorhynchus anatinus OX=9258 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 51.4 1.2 2.9e-17 1e-13 1 42 [. 447 495 .. 447 498 .. 0.91 Alignments for each domain: == domain 1 score: 51.4 bits; conditional E-value: 2.9e-17 zf-GRF 1 plCk.cgrlavlltvrktgpNkGRkFYkCpkgke......kqCgFFkWa 42 p Ck +g+++v++tv+k gpN+GR+FY+C+ + + + C FF W+ tr|F6PMP6|F6PMP6_ORNAN 447 PPCKvHGEPCVMRTVKKAGPNHGRQFYVCARPVGhatnpaARCDFFLWV 495 67**9************************9888777999999******7 PP >> tr|F6VJ76|F6VJ76_ORNAN Zinc finger CCHC-type containing 4 OS=Ornithorhynchus anatinus OX=9258 GN=ZCCHC4 PE=4 SV=2 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 44.7 2.9 3.6e-15 1.3e-11 2 45 .] 25 68 .. 24 68 .. 0.93 2 ? -5.1 7.1 6 2.2e+04 20 36 .. 389 403 .. 377 417 .. 0.83 3 ? -2.3 1.2 1.6 5.9e+03 7 22 .. 450 465 .. 439 466 .. 0.53 Alignments for each domain: == domain 1 score: 44.7 bits; conditional E-value: 3.6e-15 zf-GRF 2 lCkcg.rlavlltvrktgpNkGRkFYkCpkgke.kqCgFFkWadek 45 C++g +l++++ + +g++ R FY+C+++++ k+C FF+W+dek tr|F6VJ76|F6VJ76_ORNAN 25 RCPHGpTLLFVKGN--QGEEAARRFYACSACRDrKDCHFFQWEDEK 68 7****999999988..7***************************95 PP == domain 2 score: -5.1 bits; conditional E-value: 6 zf-GRF 20 NkGRkFYkCpkgkekqC 36 GR ++ C ++k+ C tr|F6VJ76|F6VJ76_ORNAN 389 KDGRRWHHCFLCKK--C 403 479******99997..6 PP == domain 3 score: -2.3 bits; conditional E-value: 1.6 zf-GRF 7 rlavlltvrktgpNkG 22 +++ vrk+ + kG tr|F6VJ76|F6VJ76_ORNAN 450 HKKTVKAVRKQKKKKG 465 3335666677766665 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (45 nodes) Target sequences: 21677 (8259262 residues searched) Passed MSV filter: 917 (0.0423029); expected 433.5 (0.02) Passed bias filter: 422 (0.0194676); expected 433.5 (0.02) Passed Vit filter: 32 (0.00147622); expected 21.7 (0.001) Passed Fwd filter: 7 (0.000322923); expected 0.2 (1e-05) Initial search space (Z): 21677 [actual number of targets] Domain search space (domZ): 6 [number of targets reported over threshold] # CPU time: 0.08u 0.00s 00:00:00.08 Elapsed: 00:00:00.05 # Mc/sec: 7433.34 // [ok]