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

6 accessions found for Rhodococcus opacus B4  

Data for AP011117  

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: AP011117.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
-------- ----------- ----- ------- ---
AP011117_0165 CDS_176490-181268 71.8 4.5e-22 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AP011117_0165 1/1 1396 1460 .. 1 70 [] 71.8 4.5e-22

Alignments of top-scoring domains:
AP011117_0165: domain 1 of 1, from 1396 to 1460: score 71.8, E = 4.5e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER RIAR+LHD+ g+ +++++ +l++++ ++++ r++++ +
AP011117_0 1396 ERGRIARDLHDEFGHLFAGVMDGLSALQ-----NSEDATTRQTATDV 1437

relarealaevRrllgdLRpaal<-*
r+++r++++ +R +++ LRp++l
AP011117_0 1438 RTIVRQGIQVARTVAWSLRPSGL 1460


Histogram of all scores:
score obs exp (one = represents 1 sequences)
----- --- ---
-14 2 0|==
-13 1 0|=
-12 8 2|=*======
-11 13 22|============= *
-10 28 52|============================ *
-9 44 59|============================================ *
-8 32 46|================================ *
-7 40 29|============================*===========
-6 26 16|===============*==========
-5 19 8|=======*===========
-4 15 4|===*===========
-3 5 2|=*===
-2 6 1|*=====
-1 4 0|====
0 2 0|==
> 1 3 -|===


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 45.8573
P(chi-square) = 3.161e-08

Total sequences searched: 248

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: