Acidobacteria Actinobacteria Alphaproteobacteria
Aquificae Bacteroidetes/Chlorobi Betaproteobacteria
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 Saccharophagus degradans 2-40  

Data for CP000282  

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: CP000282.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
-------- ----------- ----- ------- ---
CP000282_3812 CDS_4822754-4821612 77.4 1.6e-22 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000282_3812 1/1 191 260 .. 1 70 [] 77.4 1.6e-22

Alignments of top-scoring domains:
CP000282_3812: domain 1 of 1, from 191 to 260: score 77.4, E = 1.6e-22
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIAR+LHD +g++L++i l+++la++l ++ + ++++ e
CP000282_3 191 ERERIARDLHDILGHTLTSIVLKSQLAEKLC--AAGQTaQGQKEIGE 235

irelarealaevRrllgdLR.paal<-*
+ ++a+eal+e+R+++++++ + +
CP000282_3 236 VSRIASEALSELRQTVSGYKaKTME 260


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-14 13 0|=
-13 87 0|======
-12 183 44|==*==========
-11 269 367|================== *
-10 746 852|================================================== *
-9 843 967|========================================================= *
-8 567 745|====================================== *
-7 454 468|===============================*
-6 310 265|=================*===
-5 247 142|=========*=======
-4 124 74|====*====
-3 63 38|==*==
-2 47 19|=*==
-1 26 9|*=
0 10 5|*
1 8 2|*
2 4 1|*
3 1 0|=
4 1 0|=
5 1 0|=
6 0 0|
7 1 0|=
8 1 0|=
9 0 0|
10 0 0|
> 11 2 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 729.0206
P(chi-square) = 0

Total sequences searched: 4008

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: