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:
35 projects found  

4 accessions found for Lawsonia intracellularis PHE/MN1-00  

Data for AM180252  

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_1.hmm [HisKA]
Sequence database: AM180252.Gprot.fsa
per-sequence score cutoff: >= 26.8 [TC1]
per-domain score cutoff: >= 26.8 [TC2]
per-sequence Eval cutoff: [none]
per-domain Eval cutoff: [none]
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Query HMM: HisKA
Accession: PF00512.12
Description: His Kinase A (phosphoacceptor) domain
[HMM has been calibrated; E-values are empirical estimates]

Scores for complete sequences (score includes all domains):
Sequence Description Score E-value N
-------- ----------- ----- ------- ---
AM180252_0877 CDS_1093269-1091827 65.5 9.6e-19 1
AM180252_1077 CDS_1324889-1326631 50.5 1.7e-14 2
AM180252_0260 CDS_321744-323993 45.5 4.3e-13 1

Parsed for domains:
Sequence Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
AM180252_0877 1/1 265 332 .. 1 87 [] 65.5 9.6e-19
AM180252_1077 1/2 361 422 .. 1 82 [. 47.3 1.3e-13
AM180252_0260 1/1 518 587 .. 1 87 [] 45.5 4.3e-13

Alignments of top-scoring domains:
AM180252_0877: domain 1 of 1, from 265 to 332: score 65.5, E = 9.6e-19
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
++++ +a+++HE+R+PL Ir aelLl+++ + +++
AM180252_0 265 SMGRITASIAHEIRNPLGIIRSSAELLLRRA-------VDINPDN-- 302

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
+++l i++e+ rl++ +nd+Ld++r +
AM180252_0 303 ----------KQILTAIYDESCRLSQTVNDFLDYARPKIP 332

AM180252_1077: domain 1 of 2, from 361 to 422: score 47.3, E = 1.3e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
+ + ++++++HE+R PL++I+gy+ L + + + ++ +
AM180252_1 361 SIGSLASGVAHEIRSPLSSIKGYVNYLGD--------RLPYDSSD-- 397

peLRledpeyreyletilreaerllrLindlLdls<-*
+e++++i +e++rl+r i+dl ls
AM180252_1 398 ----------QELIKIIMQEIDRLNRVISDLIGLS 422

AM180252_0260: domain 1 of 1, from 518 to 587: score 45.5, E = 4.3e-13
*->akseflanlsHELRTPLtaIrgyaelLleeldkvlagdtelseeqrl
a +e ++ ++HE+++PLt I++ + L +++ g++ +++
AM180252_0 518 AWREVARRIAHEIKNPLTPIKLSGQRLDKKF-----GSQIQDPVF-- 557

peLRledpeyreyletilreaerllrLindlLdlsrieag<-*
++ +e i +++erl+++++++ ++++ +
AM180252_0 558 ----------QQCTELIVKQVERLQDMVQEFSSFAKLPEV 587


Histogram of all scores:
score obs exp (one = represents 5 sequences)
----- --- ---
-13 10 0|==
-12 61 27|=====*=======
-11 126 140|========================== *
-10 208 260|========================================== *
-9 243 269|================================================= *
-8 201 201|========================================*
-7 124 126|=========================*
-6 102 73|==============*======
-5 46 40|=======*==
-4 27 21|====*=
-3 15 11|==*
-2 10 5|*=
-1 2 3|*
0 3 1|*
1 2 0|=
2 0 0|
3 1 0|=
4 0 0|
5 0 0|
> 6 4 -|=


% Statistical details of theoretical EVD fit:
mu = -8.9758
lambda = 0.6525
chi-sq statistic = 74.8890
P(chi-square) = 5.001e-12

Total sequences searched: 1187

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: 22K


Acknowledgements:

This research is funded by:

Developed by: