# hmmscan :: search sequence(s) against a profile 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 sequence file: AA/23726_FusoPortal_Gene_732.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_732 [L=539] Description: # 825511 # 827127 # 1 # ID=1_732;partial=00;start_type=ATG;rbs_motif=AGGAG/GGAGG;rbs_spacer=11-12bp;gc_cont=0.279 Scores for complete sequence (score includes all domains): --- full sequence --- --- best 1 domain --- -#dom- E-value score bias E-value score bias exp N Model Description ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- 6.4e-28 96.9 0.0 1.2e-27 96.0 0.0 1.5 1 DHH DHH family 1.2e-15 57.8 0.7 2.6e-15 56.8 0.4 1.7 2 DHHA2 DHHA2 domain 9.1e-12 45.1 0.0 1.9e-06 28.1 0.0 2.8 2 CBS CBS domain ------ inclusion threshold ------ 0.011 15.8 0.2 0.98 9.5 0.0 2.6 2 Pneumo_NS1 Pneumovirus NS1 protein 0.012 15.3 0.5 0.16 11.7 0.1 2.3 2 dCache_1 Cache domain Domain annotation for each model (and alignments): >> DHH DHH family # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 96.0 0.0 3.6e-31 1.2e-27 1 101 [] 3 373 .. 3 373 .. 0.94 Alignments for each domain: == domain 1 score: 96.0 bits; conditional E-value: 3.6e-31 EEEEE.ECSSSHHHHHHHHHHHHC............................................................ CS xxxxxxxxxxxxxxxxxxxxxxxx............................................................ RF DHH 1 kilivghknpDtDsigSaialanl............................................................ 24 +il++ghknpDtDsi+S+i +anl 23726_FusoPortal_Gene_732 3 EILVFGHKNPDTDSICSSITMANLrekqgskatpcrlgeinketkfvldkvgiktpkllktvsaqiidlnyvekstvstedsik 86 59*********************7777777777777788888888888888888888888888888899999999999999999 PP .................................................................................... CS .................................................................................... RF DHH 25 .................................................................................... 24 23726_FusoPortal_Gene_732 87 ealdlmtkenfsslpvidkdgyfktmlsisdiantyleidysdlfskysttyenlkealdgeiisgvypkgeitsnlkevsele 170 9999999999999999999999999999999999999999999999999999999999999999999***************** PP .................................................................................... CS .................................................................................... RF DHH 25 .................................................................................... 24 23726_FusoPortal_Gene_732 171 smkkgdiiittsltdgidksiqagakvvivcckkedfisprvtsecaimlvrhslvksislisqsisvggilntekvlfnfnke 254 ************************************************************************************ PP .............................................ECS--TCGGCGCCHHCCCSEEEEEEE-S---SS---SS. CS .............................................xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF DHH 25 .............................................lvDhneksqavegeakeeaedviiiDHHrlgeefetlap 63 +vDhne sq+veg +++a++++++DHH+ + +f+t++ 23726_FusoPortal_Gene_732 255 dflneirgimkdanqtnfpvlendgkvygtirtkhlidfhrkkviMVDHNEFSQSVEG--IQDAQILEVVDHHKFA-NFQTNEA 335 **********************************************************..***************9.******* PP .EEEE.SSS-HHHHHHHHHHHTT--..HHHHHHHHHHH CS xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx RF DHH 64 ilflnepvgstaeivaelleekkeeiskeiaellllgi 101 +++epvg+t++iv+ l++e k+e+++++a l+l++i 23726_FusoPortal_Gene_732 336 TKIRTEPVGCTSTIVYGLYKEAKIEPDEKTALLMLSAI 373 ************************************98 PP >> DHHA2 DHHA2 domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? -3.2 0.0 2.4 8.1e+03 52 67 .. 253 268 .. 240 321 .. 0.66 2 ! 56.8 0.4 7.7e-19 2.6e-15 2 143 .] 411 534 .. 410 534 .. 0.90 Alignments for each domain: == domain 1 score: -3.2 bits; conditional E-value: 2.4 HHHHHHHHHHHH.HHT CS DHHA2 52 kgellaalekfaeerk 67 k+++l++++ ++++ + 23726_FusoPortal_Gene_732 253 KEDFLNEIRGIMKDAN 268 4557777777765544 PP == domain 2 score: 56.8 bits; conditional E-value: 7.7e-19 HHHHHHT-STTS-HHHHTTTTEEEEE.ETTEEEEEEEEEES-HHHHHT.THHHHHHHHHHHH.HHT-SEEEEEEE.....ETTT CS DHHA2 2 elkkaksdlsglsledllrrDyKeftgeggvkvgiasvpvslsewleekrkgellaalekfaeerkldllvlmttfeeegdirr 85 e+ a++++s+ ++++++++D K f g++++++a+++++ ++l + rk+e+++++e + ++ l+++++t di + 23726_FusoPortal_Gene_732 411 EMLVAGTSMSKENMKEIINQDKKVFP-VGDIEIAVAQINTVQIQELAD-RKEEIKKEVEHEIGKYGYSLFIFVVT-----DIIN 487 8999**********************.****************9***9.99***********9999*********.....9999 PP ..EEEEEE...STT...HHHHHT---B.T.EEET...............T---HHHHTHHHHHHH CS DHHA2 86 ..elllaaldaaek...laealekase.e.leLeawkegaewrrvykqgnvkasRKqvaPllrea 143 +ll+++ +++ +++a++k+ + + Le nv++++Kq++P l++a 23726_FusoPortal_Gene_732 488 snSLLFVY---GKEidlVQNAFKKDVVdNeVLLE---------------NVVSRKKQIIPFLMTA 534 88888888...5455778899998855555****...............*************976 PP >> CBS CBS domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ! 28.1 0.0 5.8e-10 1.9e-06 11 53 .. 78 120 .. 64 124 .. 0.87 2 ! 14.3 0.0 1.2e-05 0.04 12 54 .. 251 293 .. 238 296 .. 0.87 Alignments for each domain: == domain 1 score: 28.1 bits; conditional E-value: 5.8e-10 EEETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHH CS CBS 11 tvppdttleealelmrekgvsrlPVVdedgklvGivtlrDllr 53 tv+ +++++eal+lm+++++s+lPV+d+dg + +++ +D+++ 23726_FusoPortal_Gene_732 78 TVSTEDSIKEALDLMTKENFSSLPVIDKDGYFKTMLSISDIAN 120 99*************9999***********9999999999986 PP == domain 2 score: 14.3 bits; conditional E-value: 1.2e-05 EETTSBHHHHHHHHHHHTSSEEEEEETTTBEEEEEEHHHHHHH CS CBS 12 vppdttleealelmrekgvsrlPVVdedgklvGivtlrDllra 54 ++ ++ l e+ +m++++ + +PV+++dgk+ G + ++l+++ 23726_FusoPortal_Gene_732 251 FNKEDFLNEIRGIMKDANQTNFPVLENDGKVYGTIRTKHLIDF 293 567778999*****999999*****99***********99986 PP >> Pneumo_NS1 Pneumovirus NS1 protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 9.5 0.0 0.00029 0.98 32 98 .. 51 118 .. 18 139 .. 0.79 2 ? 3.5 0.0 0.02 66 71 100 .. 263 292 .. 224 318 .. 0.83 Alignments for each domain: == domain 1 score: 9.5 bits; conditional E-value: 0.00029 Pneumo_NS1 32 dklilltnalaka.aihtiklngivfihvitssevcpdnnivvksnfttmpilqnggyiwelielthc 98 dk+ + t l k+ + + i ln + v t + +++ k nf+++p++++ gy ++ ++ 23726_FusoPortal_Gene_732 51 DKVGIKTPKLLKTvSAQIIDLNYVEKSTVSTEDSIKEALDLMTKENFSSLPVIDKDGYFKTMLSISDI 118 666666666666515678899999999999999999999*******************9998877665 PP == domain 2 score: 3.5 bits; conditional E-value: 0.02 Pneumo_NS1 71 ivvksnfttmpilqnggyiwelielthcsq 100 i+ +n t +p+l+n g ++ i h + 23726_FusoPortal_Gene_732 263 IMKDANQTNFPVLENDGKVYGTIRTKHLID 292 6667899**************999888654 PP >> dCache_1 Cache domain # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 11.7 0.1 4.7e-05 0.16 44 127 .. 70 154 .. 40 178 .. 0.69 2 ? 1.3 0.0 0.07 2.3e+02 29 88 .. 225 283 .. 220 302 .. 0.73 Alignments for each domain: == domain 1 score: 11.7 bits; conditional E-value: 4.7e-05 dCache_1 44 dlleepnraneasreslqallksilksnpdisgvylvdadGqviassdpssppnleg......tddpadrdw..ykkalagggg 119 d l++ ++ ++++++s+ ++l+ + ++++s++ ++d+dG++ + + s++ n++ ++ ++ + +k+al+g+ 23726_FusoPortal_Gene_732 70 D-LNYVEKSTVSTEDSIKEALDLMT--KENFSSLPVIDKDGYFKTMLSISDIANTYLeidysdLFSKYSTTYenLKEALDGE-- 148 3.33334447888999999999775..688*************777777777776554444442333333336677777766.. PP dCache_1 120 kpvisdpy 127 + is +y 23726_FusoPortal_Gene_732 149 -I-ISGVY 154 .4.78887 PP == domain 2 score: 1.3 bits; conditional E-value: 0.07 dCache_1 29 lenlaetlasnpdlqdlleepnraneasreslqallksilksnpdisgvylvdadGqvia 88 l ++ ++++++++ + l+ + + ++e++ + ++ i+k +++ ++ ++ +dG+v+ 23726_FusoPortal_Gene_732 225 LVKSISLISQSISVGGILNTEKVLFNFNKEDFLNEIRGIMK-DANQTNFPVLENDGKVYG 283 56677789999999999987666655555555555555553.223478999999999975 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (539 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 1004 (0.0600766); expected 334.2 (0.02) Passed bias filter: 502 (0.0300383); expected 334.2 (0.02) Passed Vit filter: 52 (0.00311154); expected 16.7 (0.001) Passed Fwd filter: 5 (0.000299186); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 5 [number of targets reported over threshold] # CPU time: 0.30u 0.24s 00:00:00.54 Elapsed: 00:00:00.32 # Mc/sec: 4896.53 // [ok]