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Firmicutes Fusobacteria Gammaproteobacteria
Other Bacteria Planctomycetes Spirochaetes
Thermotogae
Classification of phyla is from NCBI page
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2 accessions found for Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S  

Data for CP001363  

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: CP001363.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
-------- ----------- ----- ------- ---
CP001363_2089 CDS_1874971-1876767 74.3 1.7e-21 1
CP001363_2973 CDS_2643176-2645014 72.9 4.4e-21 1
CP001363_4466 CDS_4004246-4002744 65.1 9.2e-19 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
CP001363_2089 1/1 390 458 .. 1 70 [] 74.3 1.7e-21
CP001363_2973 1/1 407 474 .. 1 70 [] 72.9 4.4e-21
CP001363_4466 1/1 304 370 .. 1 70 [] 65.1 9.2e-19

Alignments of top-scoring domains:
CP001363_2089: domain 1 of 1, from 390 to 458: score 74.3, E = 1.7e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++QsLs +k+q++ ++++ d pe re l +i
CP001363_2 390 ERATIARELHDSIAQSLSCMKMQVSCLQMQG--DVLPESSRELLSQI 434

relarealaevRrllgdLR.paal<-*
r ++ + a++R+ll+++R ++
CP001363_2 435 RNELNCSWAQLRELLTTFRlQLTE 458

CP001363_2973: domain 1 of 1, from 407 to 474: score 72.9, E = 4.4e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ERa IARELHDs++Q Ls +++ql l++r++ ++d++ a+ ++
CP001363_2 407 ERATIARELHDSLAQVLSYLRIQLTLLKRAI--PEDNAGAQSIMADF 451

relarealaevRrllgdLRpaal<-*
+++++a++++R+ll+++R +
CP001363_2 452 SRALNDAYRQLRELLTTFRLTLQ 474

CP001363_4466: domain 1 of 1, from 304 to 370: score 65.1, E = 9.2e-19
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
R+ ARELHD +gQ+++ai+ q++ ++rl+ +d++ +++ + i
CP001363_4 304 VRRDVARELHDDIGQTITAIRTQAGIVQRLA---ADNGGVKQSGQLI 347

relarealaevRrllgdLRpaal<-*
++l+ ++ vRrllg+LRp +l
CP001363_4 348 EQLSLGVYDAVRRLLGRLRPRQL 370


Histogram of all scores:
score obs exp (one = represents 16 sequences)
----- --- ---
-15 11 0|=
-14 153 0|==========
-13 314 0|====================
-12 290 59|===*===============
-11 412 486|========================== *
-10 869 1129|======================================================= *
-9 918 1282|==========================================================*
-8 669 988|========================================== *
-7 562 621|==================================== *
-6 424 351|=====================*=====
-5 325 188|===========*=========
-4 141 98|======*==
-3 94 50|===*==
-2 52 25|=*==
-1 31 13|*=
0 19 6|*=
1 12 3|*
2 4 1|*
3 4 0|=
4 1 0|=
5 3 0|=
> 6 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 1422.9573
P(chi-square) = 0

Total sequences searched: 5372

Whole sequence top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 3
Satisfying E cutoff: 3
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: