# 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_1871.faa # target HMM database: Pfam-A.hmm # - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - Query: 23726_FusoPortal_Gene_1871 [L=206] Description: # 2004188 # 2004805 # 1 # ID=1_1871;partial=00;start_type=ATG;rbs_motif=AGGAGG;rbs_spacer=11-12bp;gc_cont=0.235 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 ------- ------ ----- ------- ------ ----- ---- -- -------- ----------- ------ inclusion threshold ------ 0.13 12.4 11.5 1.2 9.3 3.9 2.7 2 Pkr1 ER protein Pkr1 0.45 9.9 5.1 0.38 10.1 4.3 1.3 1 Spo7 Spo7-like protein 2.1 8.9 7.0 4.1 7.9 1.3 2.7 2 DUF3139 Protein of unknown function (DUF3139) Domain annotation for each model (and alignments): >> Pkr1 ER protein Pkr1 # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 6.8 0.9 0.0012 6.9 33 61 .. 15 43 .. 12 47 .. 0.85 2 ? 9.3 3.9 0.00021 1.2 18 48 .. 52 82 .. 47 105 .. 0.77 Alignments for each domain: == domain 1 score: 6.8 bits; conditional E-value: 0.0012 Pkr1 33 lvllaLlvltsaniHfivLlllalgLwis 61 l l+++ +lt+ n+ L++l++++++s 23726_FusoPortal_Gene_1871 15 LFLVIFGFLTYKNYYYSPLIVLTIMMYFS 43 557777889999**************998 PP == domain 2 score: 9.3 bits; conditional E-value: 0.00021 Pkr1 18 ptlliatnvsFaaLllvllaLlvltsaniHf 48 + + + t ++F++L+ +ll+L + ++ + H+ 23726_FusoPortal_Gene_1871 52 NRIFLSTRAIFWILFSTLLFLRIYFNESSHL 82 5677899******************99*997 PP >> Spo7 Spo7-like protein # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 10.1 4.3 6.8e-05 0.38 31 148 .. 52 168 .. 41 192 .. 0.68 Alignments for each domain: == domain 1 score: 10.1 bits; conditional E-value: 6.8e-05 Spo7 31 ytlflllLalviafflyalflapredgsgvggsvywvvevvekvlliggvvTlvL..fwlsGeyertiviprrflsvtNrgLR 111 + +fl++ a++ ++f+ lfl+ ++s ++ +++++ + li++++ f++ +y r +rf+s++N+g 23726_FusoPortal_Gene_1871 52 NRIFLSTRAIFWILFSTLLFLRIYFNESSHL--DMKNTKTLLTISLISICIGTWVgdFFAKYIYIRIKFCINRFFSTSNKGT- 131 6788888888888888888885555544444..67778888888888888866555599999****9999***********6. PP Spo7 112 qfNvklvkvkrslleelldl...lavllkvgllsesekss 148 ++vk++++ ++ l +l + +++ ++l + + + 23726_FusoPortal_Gene_1871 132 ---YRIVKMENTQQNYLKSLgkkMGIMFYHITLDVNGEEK 168 ...5666666665555544454455444444444333333 PP >> DUF3139 Protein of unknown function (DUF3139) # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ---- 1 ? 3.4 0.4 0.019 1e+02 9 41 .. 12 47 .. 8 54 .. 0.70 2 ? 7.9 1.3 0.00074 4.1 3 44 .. 87 147 .. 59 161 .. 0.77 Alignments for each domain: == domain 1 score: 3.4 bits; conditional E-value: 0.019 DUF3139 9 illillivillvgskpikylg....kkidkyleeqgy 41 i+l+ l+++++ +k++ y++ i+ y++++g 23726_FusoPortal_Gene_1871 12 ISLLFLVIFGFLTYKNY-YYSplivLTIMMYFSTKGV 47 34555555566667777.6776777888888888875 PP == domain 2 score: 7.9 bits; conditional E-value: 0.00074 DUF3139 3 kiiiilillillivillvgskpik..ylg..kkidkyl...............eeqgykks 44 +++ i+li++++ ++vg++ k y+ i++++ ++q+y ks 23726_FusoPortal_Gene_1871 87 TKTLLTISLISICIGTWVGDFFAKyiYIRikFCINRFFstsnkgtyrivkmenTQQNYLKS 147 456788999999999*****99885444476678888888888888777555555555443 PP Internal pipeline statistics summary: ------------------------------------- Query sequence(s): 1 (206 residues searched) Target model(s): 16712 (2907032 nodes) Passed MSV filter: 1057 (0.063248); expected 334.2 (0.02) Passed bias filter: 438 (0.0262087); expected 334.2 (0.02) Passed Vit filter: 38 (0.00227382); expected 16.7 (0.001) Passed Fwd filter: 3 (0.000179512); expected 0.2 (1e-05) Initial search space (Z): 16712 [actual number of targets] Domain search space (domZ): 3 [number of targets reported over threshold] # CPU time: 0.25u 0.24s 00:00:00.49 Elapsed: 00:00:00.32 # Mc/sec: 1871.40 // [ok]