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Thermotogae
Classification of phyla is from NCBI page
Search:
264 projects found  

1 accessions found for Xanthomonas oryzae pv. oryzae MAFF 311018  

Data for AP008229  

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: AP008229.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]
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

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
-------- ----------- ----- ------- ---
AP008229_3334 CDS_3797494-3796298 72.3 5.5e-21 1
AP008229_2421 CDS_2692573-2694705 61.6 7.6e-18 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AP008229_3334 1/1 199 263 .. 1 70 [] 72.3 5.5e-21
AP008229_2421 1/1 504 569 .. 1 70 [] 61.6 7.6e-18

Alignments of top-scoring domains:
AP008229_3334: domain 1 of 1, from 199 to 263: score 72.3, E = 5.5e-21
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+RI+RELHD +g++L+a++l le+a +++ ++a+e+++++
AP008229_3 199 ERTRISRELHDLLGHHLTALSLNLEVAGHIT-----EGQAQEHVRQA 240

relarealaevRrllgdLRpaal<-*
++la+ l++vR+++++LR+++
AP008229_3 241 HTLAKLLLTDVREAVSHLRDSGA 263

AP008229_2421: domain 1 of 1, from 504 to 569: score 61.6, E = 7.6e-18
*->ERaRIARELHDsvgQsLsaiklqlelarrlldsdkdpeearealdei
ER+ I+R+LHD +gQ+++a+kl +++a+ d + d+e+ re + e+
AP008229_2 504 ERRAISRDLHDDIGQAITAMKLSAHAAL---D-EQDAEARREDMLEV 546

relarealaevRrllgdLRpaal<-*
la+ + + +R+l LRp++l
AP008229_2 547 VSLADSTVTKLRNLSMLLRPPQL 569


Histogram of all scores:
score obs exp (one = represents 12 sequences)
----- --- ---
-14 6 0|=
-13 34 0|===
-12 76 48|===*===
-11 159 400|============== *
-10 489 929|========================================= *
-9 703 1055|==========================================================*
-8 694 813|==========================================================*
-7 576 511|==========================================*=====
-6 576 289|========================*=======================
-5 480 155|============*===========================
-4 208 81|======*===========
-3 126 41|===*=======
-2 83 21|=*=====
-1 60 10|*====
0 44 5|*===
1 18 2|*=
2 10 1|*
3 9 0|=
4 6 0|=
5 7 0|=
6 1 0|=
7 1 0|=
8 1 0|=
9 1 0|=
> 10 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.7900
lambda = 0.6787
chi-sq statistic = 2515.1018
P(chi-square) = 0

Total sequences searched: 4372

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: