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Classification of phyla is from NCBI page
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2 accessions found for Shewanella sp. MR-7  

Data for CP000444  

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: CP000444.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
-------- ----------- ----- ------- ---
CP000444_0321 CDS_357870-356791 83.2 3.1e-24 1
CP000444_3340 CDS_3978521-3980317 71.7 7.5e-21 1
CP000444_1216 CDS_1432060-1430900 60.2 1.8e-17 1
CP000444_2282 CDS_2725816-2724047 59.6 2.8e-17 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP000444_0321 1/1 171 239 .. 1 70 [] 83.2 3.1e-24
CP000444_3340 1/1 364 433 .. 1 70 [] 71.7 7.5e-21
CP000444_1216 1/1 191 249 .. 1 64 [. 60.2 1.8e-17
CP000444_2282 1/1 379 446 .. 1 70 [] 59.6 2.8e-17

Alignments of top-scoring domains:
CP000444_0321: domain 1 of 1, from 171 to 239: score 83.2, E = 3.1e-24
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe.earealde
ER+RIAR+LHD g+sLs+i+l++ela++ll +k + a ++l+e
CP000444_0 171 ERERIARDLHDIMGHSLSSIALKAELAEKLL--AKQEYqLATTQLQE 215

irelarealaevRrllgdLRpaal<-*
+ ++are+l+++R++++d+++ +l
CP000444_0 216 LGQIARESLSQIRHTVSDYKHKGL 239

CP000444_3340: domain 1 of 1, from 364 to 433: score 71.7, E = 7.5e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpe..eareald
ER IARELHDs+gQ Ls +k+q++l+r+ l d +++++ +l+
CP000444_3 364 ERGVIARELHDSLGQVLSFLKIQISLLRKNL--DHSCRspAVENQLT 408

eirelarealaevRrllgdLRpaal<-*
ei e +++a+ ++R+ll+++R ++
CP000444_3 409 EINEGVSTAYVQLRELLSTFRLTIK 433

CP000444_1216: domain 1 of 1, from 191 to 249: score 60.2, E = 1.8e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER RI+R+LHD +g++L+a++lqlel+ + +p e++ ++ +
CP000444_1 191 ERLRISRDLHDILGHQLTALSLQLELLS-----HQAPSELKPTVNQS 232

relarealaevRrllgd<-*
+ la+e l+ +R+++++
CP000444_1 233 KSLAKELLESIRAVVRA 249

CP000444_2282: domain 1 of 1, from 379 to 446: score 59.6, E = 2.8e-17
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k++++ ++++ + +e ++e+
CP000444_2 379 ERAVIARELHDSIAQSLSCLKIKVSCLQMQS--KNLGAEQLVLIQEM 423

relarealaevRrllgdLRpaal<-*
r+ ++ a++ +R+ll+++R
CP000444_2 424 RTELNSAYSHLRELLTTFRLKLN 446


Histogram of all scores:
score obs exp (one = represents 15 sequences)
----- --- ---
-14 20 0|==
-13 87 0|======
-12 162 44|==*========
-11 263 367|================== *
-10 686 851|============================================== *
-9 842 967|========================================================= *
-8 633 745|=========================================== *
-7 485 468|===============================*=
-6 323 265|=================*====
-5 230 142|=========*======
-4 96 74|====*==
-3 69 38|==*==
-2 40 19|=*=
-1 31 9|*==
0 15 5|*
1 8 2|*
2 5 1|*
3 4 0|=
> 4 7 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 586.4121
P(chi-square) = 0

Total sequences searched: 4006

Whole sequence top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 22K


Acknowledgements:

This research is funded by:

Developed by: