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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 Vibrio cholerae M66-2  

Data for CP001234  

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: CP001234.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
-------- ----------- ----- ------- ---
CP001234_0608 CDS_585563-583812 72.0 1.6e-21 1
CP001234_0616 CDS_592442-594025 45.0 1.5e-13 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001234_0608 1/1 374 447 .. 1 70 [] 72.0 1.6e-21
CP001234_0616 1/1 320 384 .. 2 70 .] 45.0 1.5e-13

Alignments of top-scoring domains:
CP001234_0608: domain 1 of 1, from 374 to 447: score 72.0, E = 1.6e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrllds.dkdpe..eareal
ERa IARELHDs++QsLs +k+ql l++r +++ ++d + ++ + +
CP001234_0 374 ERATIARELHDSLAQSLSYLKIQLTLLKRSVTPlKSDGDlsKTENII 420

deirelarealaevRrllgdLR.paal<-*
+ei + +++a++++R+ll+++R + ++
CP001234_0 421 REIDKGLSDAYTQLRELLTTFRlTLTE 447

CP001234_0616: domain 1 of 1, from 320 to 384: score 45.0, E = 1.5e-13
*->RaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdeir
R+ ARELHD++gQ+++ai +q+ la+rl+ d +a++a+ ++
CP001234_0 320 RKSVARELHDEIGQNITAIQIQSMLAERLA--SND--QAKQAASSVQ 362

elarealaevRrllgdLRpaal<-*
la + + +R+ll +LRp +l
CP001234_0 363 SLAMRIHQSTRQLLKQLRPHIL 384


Histogram of all scores:
score obs exp (one = represents 4 sequences)
----- --- ---
-14 29 0|========
-13 57 0|===============
-12 59 11|==*============
-11 73 95|=================== *
-10 184 221|============================================== *
-9 197 251|================================================== *
-8 131 194|================================= *
-7 112 122|============================ *
-6 58 69|=============== *
-5 60 37|=========*=====
-4 28 19|====*==
-3 20 9|==*==
-2 15 5|=*==
-1 4 2|*
0 5 1|*=
1 3 0|=
2 2 0|=
3 1 0|=
4 1 0|=
5 1 0|=
6 0 0|
> 7 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 286.9214
P(chi-square) = 0

Total sequences searched: 1043

Whole sequence top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: