hmmsearch - search a sequence database with a profile HMM
HMMER 2.3.2 (Oct 2003)
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
Freely distributed under the GNU General Public License (GPL)
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HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_3.hmm [HisKA_3]
Sequence database: AM743169.Gprot.fsa
per-sequence score cutoff: >= 30.1 [TC1]
per-domain score cutoff: >= 30.1 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_3
Accession: PF07730.2
Description: Histidine kinase
[HMM has been calibrated; E-values are empirical estimates]
Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
AM743169_0348 CDS_367055-368269 90.4 2.6e-26 1
AM743169_2200 CDS_2367702-2365600 67.1 1.9e-19 1
AM743169_1189 CDS_1302330-1303526 66.5 2.9e-19 1
AM743169_3997 CDS_4344402-4343302 56.8 2.1e-16 1
AM743169_2728 CDS_2931323-2934352 48.0 8.3e-14 1
Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AM743169_0348 1/1 203 270 .. 1 70 [] 90.4 2.6e-26
AM743169_2200 1/1 494 559 .. 1 70 [] 67.1 1.9e-19
AM743169_1189 1/1 197 261 .. 1 70 [] 66.5 2.9e-19
AM743169_3997 1/1 181 246 .. 1 70 [] 56.8 2.1e-16
AM743169_2728 1/1 793 859 .. 1 70 [] 48.0 8.3e-14
Alignments of top-scoring domains:
AM743169_0348: domain 1 of 1, from 203 to 270: score 90.4, E = 2.6e-26
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RI R+LHD +g++Ls+i+l+lelar+l+ d+d+++ar+++ e+
AM743169_0 203 ERERIGRDLHDLLGHTLSLITLKLELARKLY--DRDDARARQEIGEA 247
relarealaevRrllgdLRpaal<-*
+++areala+vR +++++R ++l
AM743169_0 248 EAIAREALAQVRSAVTGIRASDL 270
AM743169_2200: domain 1 of 1, from 494 to 559: score 67.1, E = 1.9e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+ I+R+LHD +gQ+++aikl +++a+ d + dp++ +e l++i
AM743169_2 494 ERRAISRDLHDDIGQAITAIKLSAHAAQ---D-EHDPQRRAEDLAQI 536
relarealaevRrllgdLRpaal<-*
la+++ a +R++ + LRp++l
AM743169_2 537 VSLADTTVAKLRDISTLLRPPQL 559
AM743169_1189: domain 1 of 1, from 197 to 261: score 66.5, E = 2.9e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RI+RELHD +g++L+a++l le+a +l+ ++a e++++
AM743169_1 197 ERTRISRELHDLLGHQLTALTLNLEVAGHLA-----EGQALEHVKRS 238
relarealaevRrllgdLRpaal<-*
++la+ l vR+++++LR+++
AM743169_1 239 HTLAKLLLGNVREVVSQLRETGA 261
AM743169_3997: domain 1 of 1, from 181 to 246: score 56.8, E = 2.1e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER R+ARELHD+ g+ L+a++l l +++ +++ + re l +
AM743169_3 181 ERLRLARELHDVAGHKLTAMRLNLRALA-----ADPVLAKREGLVLA 222
relarealaevRrllgdLR.paal<-*
++l+ e la++R++++ +R++ +l
AM743169_3 223 EQLSGELLADIRQVVQSMRdDRGL 246
AM743169_2728: domain 1 of 1, from 793 to 859: score 48.0, E = 8.3e-14
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RIAR+LHD++ Q+ +++l l+++ + + pe++r +l+ +
AM743169_2 793 ERERIARDLHDTLLQGSQGLILRLHAIS-QS--PQTPEPVRSQLESA 836
relarealaevRrllgdLRpaal<-*
++la++ lae R+ + +LR++ +
AM743169_2 837 MQLAERNLAEGRERVNALREGPF 859
Histogram of all scores:
score obs exp (one = represents 12 sequences)
----- --- ---
-14 2 0|=
-13 35 0|===
-12 67 48|===*==
-11 175 401|=============== *
-10 467 932|======================================= *
-9 704 1059|==========================================================*
-8 621 816|==================================================== *
-7 627 513|==========================================*==========
-6 538 290|========================*====================
-5 453 155|============*=========================
-4 261 81|======*===============
-3 168 41|===*==========
-2 102 21|=*=======
-1 52 10|*====
0 44 5|*===
1 24 2|*=
2 14 1|*=
3 9 0|=
4 4 0|=
5 5 0|=
6 1 0|=
7 1 0|=
8 3 0|=
9 2 0|=
10 0 0|
11 0 0|
12 1 0|=
> 13 6 -|=
% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2841.0554
P(chi-square) = 0
Total sequences searched: 4430
Whole sequence top hits:
tophits_s report:
Total hits: 5
Satisfying E cutoff: 5
Total memory: 21K
Domain top hits:
tophits_s report:
Total hits: 5
Satisfying E cutoff: 5
Total memory: 22K
