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Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
Search:
106 projects found  

2 accessions found for Nocardioides sp. JS614  

Data for CP000509  

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_2.hmm [HisKA_2]
Sequence database: CP000509.Gprot.fsa
per-sequence score cutoff: >= 32.2 [TC1]
per-domain score cutoff: >= 32.2 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_2
Accession: PF07568.2
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
-------- ----------- ----- ------- ---
CP000509_1675 CDS_1816392-1817867 105.2 1.1e-29 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000509_1675 1/1 294 358 .. 1 71 [. 105.2 1.1e-29

Alignments of top-scoring domains:
CP000509_1675: domain 1 of 1, from 294 to 358: score 105.2, E = 1.1e-29
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ++++LLrLQar+ ++e + + aL+E+++RV S
CP000509_1 294 EIHHRVKNNLQTVAALLRLQARRMDSESA-----RLALEEAVRRVGS 335

mAliHEeLYksedldtvdfseYle<-*
+A++HE L++ + ++vdf++ l+
CP000509_1 336 IAIVHETLSQAVE-EQVDFDDILD 358


Histogram of all scores:
score obs exp (one = represents 22 sequences)
----- --- ---
-15 3 0|=
-14 14 0|=
-13 65 29|=*=
-12 302 305|=============*
-11 1288 849|======================================*====================
-10 1072 1099|=================================================*
-9 684 928|================================ *
-8 611 622|============================*
-7 240 369|=========== *
-6 213 206|=========*
-5 66 111|=== *
-4 32 58|==*
-3 30 30|=*
-2 11 16|*
-1 8 8|*
0 1 4|*
1 2 2|*
> 2 3 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 413.9708
P(chi-square) = 0

Total sequences searched: 4645

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: