# 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/Rsm22.hmm.txt # target sequence database: proteomes/Amphimedon_queenslandica.fasta # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: Rsm22 [M=275] Accession: PF09243.9 Description: Mitochondrial small ribosomal subunit Rsm22 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 2.1e-41 143.3 0.2 9.3e-41 141.2 0.2 1.8 1 tr|A0A1X7TI28|A0A1X7TI28_AMPQE Uncharacterized protein OS=Amphi 1.3e-17 65.2 1.0 1.6e-17 65.0 1.0 1.0 1 tr|A0A1X7U9Q7|A0A1X7U9Q7_AMPQE Uncharacterized protein OS=Amphi 4.8e-12 47.0 0.0 8.6e-12 46.2 0.0 1.4 1 tr|A0A1X7TDZ6|A0A1X7TDZ6_AMPQE Uncharacterized protein OS=Amphi 2.9e-06 28.0 0.0 3.5e-06 27.8 0.0 1.1 1 tr|A0A1X7SRA3|A0A1X7SRA3_AMPQE Uncharacterized protein OS=Amphi Domain annotation for each sequence (and alignments): >> tr|A0A1X7TI28|A0A1X7TI28_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 ! 141.2 0.2 8.6e-45 9.3e-41 38 273 .. 1 270 [. 1 272 [. 0.84 Alignments for each domain: == domain 1 score: 141.2 bits; conditional E-value: 8.6e-45 Rsm22 38 lldvgegpgtalwaaselwe.eleevlvidaseelleiskelaadapelkeaalrrsvirealeleea........... 104 +ld g+g gta+wa++ +w ++ e+ +id+s+++ +++ l + + + a + +e+ tr|A0A1X7TI28|A0A1X7TI28_AMPQE 1 MLDYGSGLGTAVWAVHSIWGnSVYEYQTIDTSSDMGDLARSLRNGGSDWAYIIDPSLSACPAPTSTESikgvyfrqylp 79 79******************999****************9998877666555333322222222222235556667777 PP Rsm22 105 .......dLviisyvLleled.esreklvknlWakaskilvivEeGtpaGfrrvleaReal......kaagfhivAPCP 169 dLv+ +y L el + ++ + lW k++k+lv++E Gt +Gf + +aR++l +++ h+vAPCP tr|A0A1X7TI28|A0A1X7TI28_AMPQE 80 vsskvkyDLVVSAYSLSELPSpSLWKQALLSLWGKTEKYLVLIEFGTSSGFDIISQARDFLlnggnnDQDKCHVVAPCP 158 7888***************99677899999***********************************99899********* PP Rsm22 170 HeaaCPlvate...dwChFsqrvaRlslhrlaksasvpvedekfsy..vakerqprasa...aaRvvrptkvrskkvli 240 H+++CP +a C+F+qrva +++ +s+ + e f y ++k++ p++ R++ ptk+r+k+ ++ tr|A0A1X7TI28|A0A1X7TI28_AMPQE 159 HDLQCPKAAAAdyyRICKFAQRVAI-PFTEYTRCRSKGFYIENFCYliLKKGERPHQFIddiPCRLLLPTKKRTKHTIC 236 *******999945557*******94.44456666678888888888768888888776677799*************** PP Rsm22 241 dlCsedetlqrlvvtK.rkGeaykaArkaeWGDr 273 +lC ++++ l++ K ++ e+ ++ rk eWGD+ tr|A0A1X7TI28|A0A1X7TI28_AMPQE 237 ELCCPNGKAVTLIFSKaKQRELLRTTRKKEWGDT 270 ****************8888*************7 PP >> tr|A0A1X7U9Q7|A0A1X7U9Q7_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 ! 65.0 1.0 1.4e-21 1.6e-17 168 273 .. 14 127 .. 8 129 .. 0.87 Alignments for each domain: == domain 1 score: 65.0 bits; conditional E-value: 1.4e-21 Rsm22 168 CPHeaaCPlvate...dwChFsqrvaRlslhrlaksasvpvedekfsy..vakerqprasa...aaRvvrptkvrskkv 238 CPH+++CP +a + C+F+qrva +++ +s+ + e fsy ++k++ p++ R++ ptk+r+k+ tr|A0A1X7U9Q7|A0A1X7U9Q7_AMPQE 14 CPHDLQCPKAAATdyyKICKFAQRVAI-PFTEYTRCRSKGFYIENFSYliLKKGERPHQFIddiPCRLLLPTKKRTKHT 91 *********999956667*******94.45556777788999999999867888777766577799************* PP Rsm22 239 lidlCsedetlqrlvvtK.rkGeaykaArkaeWGDr 273 +++lC ++++ l++ K ++ e+ ++ rk eWGD+ tr|A0A1X7U9Q7|A0A1X7U9Q7_AMPQE 92 ICELCCPNGKAVTLIFSKaKQRELLRTTRKKEWGDT 127 ******************8888*************7 PP >> tr|A0A1X7TDZ6|A0A1X7TDZ6_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 ! 46.2 0.0 7.9e-16 8.6e-12 4 80 .. 117 194 .. 114 207 .. 0.93 Alignments for each domain: == domain 1 score: 46.2 bits; conditional E-value: 7.9e-16 Rsm22 4 siaYalarlpatyavlrrvLdelaervpdflPkslldvgegpgtalwaaselwe.eleevlvidaseelleiskelaa 80 si Ya+ r + y +rvL+el + ++ f+P+++ld g+g gta+wa++ +w ++ e+ +id+s+++ +++ l + tr|A0A1X7TDZ6|A0A1X7TDZ6_AMPQE 117 SIGYAASRTQPVYGSTYRVLHELSNIDKGFKPETMLDYGSGLGTAVWAVHSIWGkSVYEYQTIDTSSDMGDLARSLRN 194 789***************************************************999*************99998865 PP >> tr|A0A1X7SRA3|A0A1X7SRA3_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 ! 27.8 0.0 3.2e-10 3.5e-06 3 50 .. 33 80 .] 31 80 .] 0.97 Alignments for each domain: == domain 1 score: 27.8 bits; conditional E-value: 3.2e-10 Rsm22 3 esiaYalarlpatyavlrrvLdelaervpdflPkslldvgegpgtalw 50 +si Ya+ r + y +rvL+el + ++ f+P+++ld g+g gta+w tr|A0A1X7SRA3|A0A1X7SRA3_AMPQE 33 VSIGYAASRTQPVYGSTYRVLHELSNIDKGFKPETMLDYGSGLGTAVW 80 7999*******************************************9 PP Internal pipeline statistics summary: ------------------------------------- Query model(s): 1 (275 nodes) Target sequences: 43435 (14716620 residues searched) Passed MSV filter: 1045 (0.0240589); expected 868.7 (0.02) Passed bias filter: 768 (0.0176816); expected 868.7 (0.02) Passed Vit filter: 46 (0.00105905); 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: 0.29u 0.01s 00:00:00.30 Elapsed: 00:00:00.10 # Mc/sec: 40470.71 // [ok]