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:
106 projects found  

1 accessions found for Mycobacterium bovis BCG str. Pasteur 1173P2  

Data for AM408590  

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_2.hmm [HisKA_2]
Sequence database: AM408590.Gprot.fsa
per-sequence score cutoff: >= 32.2 [TC1]
per-domain score cutoff: >= 32.2 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA_2
Accession: PF07568.2
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
-------- ----------- ----- ------- ---
AM408590_3252 CDS_3550016-3548511 118.2 1.9e-33 1
AM408590_3345 CDS_3649168-3647663 118.2 1.9e-33 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AM408590_3252 1/1 300 382 .. 1 94 [] 118.2 1.9e-33
AM408590_3345 1/1 300 382 .. 1 94 [] 118.2 1.9e-33

Alignments of top-scoring domains:
AM408590_3252: domain 1 of 1, from 300 to 382: score 118.2, E = 1.9e-33
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ++++LLrLQar++++ e +eaL Es++RV S
AM408590_3 300 EIHHRVKNNLQTVAALLRLQARRTSNAEG-----REALIESVRRVSS 341

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+Al+H+ L++s d ++v+++e++++++ + + ++v++ ++ +
AM408590_3 342 IALVHDALSMSVD-EQVNLDEVIDRILPIMNDVASVDRP---IR--I 382

AM408590_3345: domain 1 of 1, from 300 to 382: score 118.2, E = 1.9e-33
*->EIHHRVKNNLQvISSLLrLQarkfkdeevikdEVleaLrEsqnRVlS
EIHHRVKNNLQ++++LLrLQar++++ e +eaL Es++RV S
AM408590_3 300 EIHHRVKNNLQTVAALLRLQARRTSNAEG-----REALIESVRRVSS 341

mAliHEeLYksedldtvdfseYlekLtenLfqsygvgsdgisLklDl<-*
+Al+H+ L++s d ++v+++e++++++ + + ++v++ ++ +
AM408590_3 342 IALVHDALSMSVD-EQVNLDEVIDRILPIMNDVASVDRP---IR--I 382


Histogram of all scores:
score obs exp (one = represents 20 sequences)
----- --- ---
-15 8 0|=
-14 22 0|==
-13 76 24|=*==
-12 264 259|============*=
-11 1153 722|====================================*=====================
-10 881 935|============================================= *
-9 559 790|============================ *
-8 501 530|==========================*
-7 205 314|=========== *
-6 158 175|========*
-5 50 94|=== *
-4 34 50|==*
-3 18 26|=*
-2 10 13|*
-1 5 7|*
0 1 3|*
1 4 1|*
2 1 1|*
3 0 0|
> 4 3 -|=


% Statistical details of theoretical EVD fit:
mu = -9.5227
lambda = 0.6548
chi-sq statistic = 504.7403
P(chi-square) = 0

Total sequences searched: 3988

Whole sequence top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 20K

Domain top hits:
tophits_s report:
Total hits: 2
Satisfying E cutoff: 2
Total memory: 21K


Acknowledgements:

This research is funded by:

Developed by: