# 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/SpoU_methylase.hmm.txt # target sequence database: proteomes/Amphimedon_queenslandica.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: SpoU_methylase [M=142] Accession: PF00588.18 Description: SpoU rRNA Methylase 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 8.4e-28 98.6 0.0 1.1e-27 98.2 0.0 1.1 1 tr|A0A1X7TZJ8|A0A1X7TZJ8_AMPQE Uncharacterized protein OS=Amphi 2.7e-27 96.9 0.0 5.3e-27 96.0 0.0 1.5 1 tr|A0A1X7VLR0|A0A1X7VLR0_AMPQE Uncharacterized protein OS=Amphi 8.3e-25 88.9 0.0 1.1e-24 88.5 0.0 1.1 1 tr|A0A1X7UDQ0|A0A1X7UDQ0_AMPQE Uncharacterized protein OS=Amphi ------ inclusion threshold ------ 0.052 15.0 0.0 0.098 14.1 0.0 1.3 1 tr|A0A1X7VLF5|A0A1X7VLF5_AMPQE Uncharacterized protein OS=Amphi Domain annotation for each sequence (and alignments): >> tr|A0A1X7TZJ8|A0A1X7TZJ8_AMPQE Uncharacterized protein OS=Amphimedon queenslandica OX=400682 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 98.2 0.0 1e-31 1.1e-27 4 141 .. 42 189 .. 40 190 .. 0.88 Alignments for each domain: == domain 1 score: 98.2 bits; conditional E-value: 1e-31 EEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEEEES CS SpoU_methylase 4 vvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvvdsleealkelkeegfalvats 82 ++l++++dp+N+Gai+R+a+ fg+++++++++ s +l+p + +++aga e l ++ ++++ ++lk ++g+++++t tr|A0A1X7TZJ8|A0A1X7TZJ8_AMPQE 42 LLLYHVQDPMNFGAIIRSAYFFGVDRILVTNKSSC-PLSPVVSKSSAGAMEMLSIHSISDVISLLKVAADKGWDILGTV 119 789**************************998887.******************************************8 PP T..T-SEGC.....CSHHHTTEEEEEEBTTTBS-HHHHCTSSEEEE--....--TTSSS--HHHHHHHHH CS SpoU_methylase 83 l..kgksls.....eidlkekvalvfGnEdkGlsnelleladrlvkIp....msgeveSLNvavAvaill 141 + k +++s + ++ ++++l++GnE++Gl++e+ + +++l++I s+ ++SLNv+vA++ill tr|A0A1X7TZJ8|A0A1X7TZJ8_AMPQE 120 SpnKFEHFSvisasDHKVIRPTMLIVGNEGHGLTKEVCSCCTKLLTINpkrsLSPGFDSLNVSVATGILL 189 8654445554433344555****************************7333357899***********97 PP >> tr|A0A1X7VLR0|A0A1X7VLR0_AMPQE Uncharacterized protein OS=Amphimedon queenslandica OX=400682 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 96.0 0.0 4.9e-31 5.3e-27 2 141 .. 1456 1597 .. 1455 1598 .. 0.94 Alignments for each domain: == domain 1 score: 96.0 bits; conditional E-value: 4.9e-31 EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSCTCGSHHHHHHCTTHHHHHHEEEE..SSHHHHHHHHCCCTE CS SpoU_methylase 2 livvlveiedpgNlGaiaRtakafgaselvlvkprsadllnpeakraaagalevlelkvv..dsleealkelkeegf 76 l++v i+++ NlG ++Rt+++fg+ elvl + ++ l ++e+k +++ a+++l++ +v ++l+ +l ++++g+ tr|A0A1X7VLR0|A0A1X7VLR0_AMPQE 1456 LVLVASLINKQPNLGGLCRTCEIFGVAELVLGS-TAV-LEEKEFKSLSVTAEKWLKISQVkpSELSTYLLSMRRKGY 1530 6789999************************65.555.89****************9998667999*********** PP EEEEEST..T-SEGCCSHHHTTEEEEEEBTTTBS-HHHHCTSSEEEE----TTSSS--HHHHHHHHH CS SpoU_methylase 77 alvatsl..kgkslseidlkekvalvfGnEdkGlsnelleladrlvkIpmsgeveSLNvavAvaill 141 +lv++++ ++k++++++++ k++l++GnE++G++ el+ +d++v+Ip+ g ++SLNv+v+ ai++ tr|A0A1X7VLR0|A0A1X7VLR0_AMPQE 1531 TLVGVEQtaHSKQINNYQIPVKTVLLLGNEREGIPVELIHSLDECVEIPQFGVIRSLNVHVSGAIVV 1597 *****9999999*****************************************************97 PP >> tr|A0A1X7UDQ0|A0A1X7UDQ0_AMPQE Uncharacterized protein OS=Amphimedon queenslandica OX=400682 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 88.5 0.0 9.7e-29 1.1e-24 2 142 .] 34 180 .. 33 180 .. 0.88 Alignments for each domain: == domain 1 score: 88.5 bits; conditional E-value: 9.7e-29 EEEEEES-SSHHHHHHHHHHHHHTT-SEEEEESGSSC.TCGSHHHHHHCTTHHHHHHEEEESSHHHHHHHHCCCTEEEE CS SpoU_methylase 2 livvlveiedpgNlGaiaRtakafgaselvlvkprsa.dllnpeakraaagalevlelkvvdsleealkelkeegfalv 79 + ++l++i d gN ai+Rt++ +g+++l+ v+ + np+ r+ +ga++++ ++++ ++++++++lk +g+ +v tr|A0A1X7UDQ0|A0A1X7UDQ0_AMPQE 34 VSILLDNILDSGNENAIIRTMDGMGVQTLHRVSYGPItKAHNPKETRTDSGARKWISIHKWRDINNCIDHLKTTGTMIV 112 6799**************************999755524699********************************97776 PP EEST....T-SEGCCSHHH.TTEEEEEEBTTTBS-HHHHCTSSEEEE----TTSSS--HHHHHHHHHH CS SpoU_methylase 80 atsl....kgkslseidlk.ekvalvfGnEdkGlsnelleladrlvkIpmsgeveSLNvavAvailly 142 + ++ l+e++l+ ++v++ fGnE++G+s++ll++ d + ++pm g + S Nv+v+ +++ly tr|A0A1X7UDQ0|A0A1X7UDQ0_AMPQE 113 SSYCrpevHTPFLHELALPdKPVVFAFGNETEGISDDLLKRSDLTFRLPMVGFTTSYNVSVSIGMCLY 180 66552323333444778889**********************************************98 PP >> tr|A0A1X7VLF5|A0A1X7VLF5_AMPQE Uncharacterized protein OS=Amphimedon queenslandica OX=400682 PE=4 SV=1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 14.1 0.0 9e-06 0.098 12 55 .. 331 376 .. 326 382 .. 0.85 Alignments for each domain: == domain 1 score: 14.1 bits; conditional E-value: 9e-06 HHHHHHHHHHHH.HTT-SEEEEESG.SSCTCGSHHHHHHCTTHHHH CS SpoU_methylase 12 pgNlGaiaRtak.afgaselvlvkp.rsadllnpeakraaagalev 55 +N+GaiaR+++ ++g++++v+v++ + ++l+++++ a++++++ tr|A0A1X7VLF5|A0A1X7VLF5_AMPQE 331 TNNIGAIARMCAsIVGIERVVFVGNyLCDNVLSTQMLSYAMEYWSQ 376 68********97368********98567788999******999975 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (142 nodes) Target sequences: 43435 (14716620 residues searched) Passed MSV filter: 856 (0.0197076); expected 868.7 (0.02) Passed bias filter: 724 (0.0166686); expected 868.7 (0.02) Passed Vit filter: 50 (0.00115115); expected 43.4 (0.001) Passed Fwd filter: 4 (9.20916e-05); expected 0.4 (1e-05) Initial search space (Z): 43435 [actual number of targets] Domain search space (domZ): 4 [number of targets reported over threshold] # CPU time: 0.20u 0.01s 00:00:00.21 Elapsed: 00:00:00.11 # Mc/sec: 18997.82 // [ok]