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Deinococcus-Thermus Deltaproteobacteria Epsilonproteobacteria
Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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264 projects found  

2 accessions found for Edwardsiella tarda EIB202  

Data for CP001135  

Available Atlases
Other Plots
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: CP001135.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
-------- ----------- ----- ------- ---
CP001135_1110 CDS_1213160-1211460 69.5 3e-20 1
CP001135_1323 CDS_1439884-1438343 62.1 4.5e-18 1
CP001135_3381 CDS_3592326-3590794 56.4 2.1e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001135_1110 1/1 364 431 .. 1 70 [] 69.5 3e-20
CP001135_1323 1/1 315 380 .. 1 70 [] 62.1 4.5e-18
CP001135_3381 1/1 309 374 .. 1 70 [] 56.4 2.1e-16

Alignments of top-scoring domains:
CP001135_1110: domain 1 of 1, from 364 to 431: score 69.5, E = 3e-20
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++Q+L+ +++q+ l+rr++ d+d+ +a++ ++
CP001135_1 364 ERATIARELHDSLAQALAFLRIQITLLRRAT--DADNHPAQAIIRDF 408

relarealaevRrllgdLRpaal<-*
+++++a++++R+ll ++R +++
CP001135_1 409 DQALSDAYRQLRELLATFRLTIE 431

CP001135_1323: domain 1 of 1, from 315 to 380: score 62.1, E = 4.5e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+R+ARELHD++gQ+++ai +q++l+r+ + +p+ + a+++i
CP001135_1 315 TRKRLARELHDEIGQNITAIQIQSQLLRQ----RQEPALVLSAAAQI 357

relarealaevRrllgdLRpaal<-*
+lar+ +R+ll++LRp+al
CP001135_1 358 NDLARRIHHSTRQLLRQLRPPAL 380

CP001135_3381: domain 1 of 1, from 309 to 374: score 56.4, E = 2.1e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ IARELHD+vgQ++++i+ q++ +rrl d++ ++ + +++i
CP001135_3 309 TRREIARELHDEVGQTITVIRTQAGIIRRLS--DEP--RLLTSAEAI 351

relarealaevRrllgdLRpaal<-*
+ +a + ++ v +ll +L pa l
CP001135_3 352 ENHALRVYDGVHDLLAQLWPASL 374


Histogram of all scores:
score obs exp (one = represents 11 sequences)
----- --- ---
-15 3 0|=
-14 56 0|======
-13 114 0|===========
-12 134 39|===*=========
-11 170 324|================ *
-10 436 751|======================================== *
-9 624 853|========================================================= *
-8 510 658|=============================================== *
-7 430 413|=====================================*==
-6 360 234|=====================*===========
-5 299 125|===========*================
-4 152 65|=====*========
-3 94 33|==*======
-2 51 17|=*===
-1 43 8|*===
0 25 4|*==
1 17 2|*=
2 6 1|*
3 3 0|=
4 3 0|=
5 2 0|=
6 0 0|
> 7 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1256.4650
P(chi-square) = 0

Total sequences searched: 3536

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: