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

1 accessions found for Haemophilus parasuis SH0165  

Data for CP001321  

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)
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
HMM file: /home/projects/MicrobialGenomicsGroup/Packages/hmmdata-1.0.0.package/Resources/noarch/TCS/HisKA_3.hmm [HisKA_3]
Sequence database: CP001321.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
-------- ----------- ----- ------- ---
CP001321_1914 CDS_2151416-2152723 41.3 3.5e-12 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001321_1914 1/1 253 315 .. 2 70 .] 41.3 3.5e-12

Alignments of top-scoring domains:
CP001321_1914: domain 1 of 1, from 253 to 315: score 41.3, E = 3.5e-12
*->RaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdeir
R+ I+RELHD+vgQ+++ai+ q+ ++r++ + ++ ++i+
CP001321_1 253 RQEISRELHDEVGQNITAIRTQANILKRIA--P----DYEKISTTIE 293

elarealaevRrllgdLRpaal<-*
+l+ ++ + ll ++Rp l
CP001321_1 294 QLSLNIYDTTKVLLNRIRPRLL 315


Histogram of all scores:
score obs exp (one = represents 7 sequences)
----- --- ---
-14 28 0|====
-13 76 0|===========
-12 112 22|===*============
-11 154 185|====================== *
-10 382 429|======================================================= *
-9 402 488|==========================================================*
-8 255 376|===================================== *
-7 242 236|=================================*=
-6 143 133|==================*==
-5 102 71|==========*====
-4 59 37|=====*===
-3 30 19|==*==
-2 13 9|=*
-1 11 5|*=
0 5 2|*
1 2 1|*
2 2 0|=
3 0 0|
> 4 3 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 458.9953
P(chi-square) = 0

Total sequences searched: 2021

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: