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Chlamydiae/Verrucomicrobia Chloroflexi Cyanobacteria
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Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
264 projects found  

3 accessions found for Vibrio fischeri MJ11  

Data for CP001139  

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: CP001139.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
-------- ----------- ----- ------- ---
CP001139_1964 CDS_2169054-2170745 55.8 2.4e-16 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001139_1964 1/1 365 433 .. 1 70 [] 55.8 2.4e-16

Alignments of top-scoring domains:
CP001139_1964: domain 1 of 1, from 365 to 433: score 55.8, E = 2.4e-16
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
ER IARELHDs++QsLs +k+q+ l++r+l + + ++l
CP001139_1 365 ERSTIARELHDSLAQSLSYLKIQTTLLKRQL---EKCDciNTSTTLV 408

eirelarealaevRrllgdLRpaal<-*
e+ e ++ a++++R ll ++R ++
CP001139_1 409 ELDEGLKSAYSQLRGLLNTFRLTIN 433


Histogram of all scores:
score obs exp (one = represents 10 sequences)
----- --- ---
-15 1 0|=
-14 26 0|===
-13 78 0|========
-12 138 28|==*===========
-11 205 237|===================== *
-10 515 550|==================================================== *
-9 550 625|======================================================= *
-8 368 482|===================================== *
-7 255 303|========================== *
-6 156 171|================ *
-5 120 91|=========*==
-4 75 48|====*===
-3 43 24|==*==
-2 24 12|=*=
-1 19 6|*=
0 9 3|*
1 5 1|*
2 0 0|
3 1 0|=
> 4 2 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 535.1740
P(chi-square) = 0

Total sequences searched: 2590

Whole sequence top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 1
Satisfying E cutoff: 1
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: