Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A2 F17 I0 R1
|
43 |
55.2 |
1410130 |
81.3% |
1146435 |
215.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
3,217,530 |
T→C |
23.6% |
intergenic (+128/+26) |
yqjI → / ← aer |
PadR family putative transcriptional regulator/fused signal transducer for aerotaxis sensory component/methyl accepting chemotaxis component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,217,530 | 0 | T | C | 23.6%
| 66.2
/ 2.7
| 37 | intergenic (+128/+26) | yqjI/aer | PadR family putative transcriptional regulator/fused signal transducer for aerotaxis sensory component/methyl accepting chemotaxis component |
| Reads supporting (aligned to +/- strand): ref base T (23/3); new base C (2/7); total (25/12) |
| Fisher's exact test for biased strand distribution p-value = 5.26e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATATCAGTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCC‑GCATCCGCCAGTGGCGCGGTGCAATT‑GCCGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCACGGGTCAGGCTGGAAAGCCCATCGGCCTGTTCCAGCGTTGAATGGCTAATCTGGGCGATCAACTGGGTGACGT > NC_000913/3217326‑3217755
|
atatCAGTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCC‑GCATCCGCCAGTGGCGCGGTGCAATT‑GCCGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCACCCCCCGGATCCGGCATAcc > 1:187792/1‑228 (MQ=255)
ttgcaaacaaaaaaaaGATCAGTGGGCACAGCGCCCGGCCCGATTTTGATACTCCGCAAGGAAAGTAGTCGCC‑GCACCCGCCAGTGGCGGGGTGCAATG‑CCCGGATCGGCCGCTGTAC‑CACCCTTACCCGGCCTACCCCCG‑CTACACCCCCCGC‑AGGCCTGATAGTACGGG‑CCAGCATCGAACCGGGAATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGc < 2:469846/218‑1 (MQ=255)
gCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCC‑GCATCCGCCAGTGGCGCGGTGCAATT‑GCCGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGCTAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCAGCATACCGATTAATGCa > 1:426778/1‑227 (MQ=255)
aTCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCC‑GCATCCGCCAGTGGCGCGGTGCAATT‑GCCGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGGACCGTCACCGCGGCTTCCCGTCGCCt > 1:513965/1‑228 (MQ=255)
cgccgcTTTTGATATTACGCAACTGGATTAATCGCC‑GCATCCGCCAGTGGCGCGGTGCAATT‑GCCGGATGCGACGCTTGCC‑GCGCCTTATCCGGCCTCCACCCG‑CTCCACACCCCGC‑CGGCCCGATAAGTTGCG‑CCACCCTCTCACCAGGCCATGTC‑CCACTACCGCCGGACTCGGCATCCCGATTGATGCGGTCCCGCCCCCCCGCCCTCCACCCGGCCTGcgcgc > 2:195675/1‑226 (MQ=19)
aCGCAACTGGATTAATCGCC‑GCATCCGCCAGTGGCGCGGTGCAATT‑GCCGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCCCGGTGTTTCACCATCGCCg > 1:28875/1‑227 (MQ=255)
aCGCAACTGGATTAATCGCC‑GCATCCGCCAGTGGCGCGGTGCAATT‑GCCGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGGG‑CTCCAACCGCCGGATCCGGCAACCCGATTAATGCAGTACCTTCACCGCGCCTTCCGGTCGCCTGCCCCGGGGTTTCACCACTGCCg > 1:473530/1‑227 (MQ=38)
cAAGTGGATTAACCCCCAGCCCCCGCAGGTGGC‑CGGTGCAATTGGCCGGAT‑CGACCTGTGGCGGCGCCTTGACCGG‑CTCCACCCGATTACCCCACCCGC‑GGGCCTTATAAGATGCG‑ACAGCAGCTAAGCAGGCGTTGGG‑CACCAACCTCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGaca < 2:168687/228‑1 (MQ=255)
gATTAATCGCC‑GCATCCGCCAGTGGCGCGGTGCAATT‑GCCGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGGTTCACCATCGCCGACCCCTgcg > 1:14252/1‑227 (MQ=255)
cgcc‑gcATCCGCCAGTGGCGCGGTGCAATT‑GCCGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGCTTAATGCAGGCCCGTCCCCCCGTCTTCCCGTCGGCTGCCGCGGGGTTTCACCACACCCGACCCCCgcgccccccct > 2:340499/1‑221 (MQ=38)
c‑gcATCCGCCAGTGGCGCGGTGCAATT‑GCCGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCCCGTCTTCCAGTCGCCTGGCGCGGGGTTTCACCATACCCGACACCTTCGCACCCCCTTc > 1:280533/1‑227 (MQ=39)
tGGCGCGGTGCAATT‑CCCGGATGCGCCGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTC‑CTCCAACCGCCGGCTCCGGCATCCCGATTAATGCAGTACCGTCACCGCGTCGTCCAGTCGGCTGCCCCGCTGTTTCACCATCGCCCACACCTGCGCCCTCCCCTCCCCCACCCCGGCa > 2:164486/1‑228 (MQ=255)
ccGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CCCCAACCGCCGGATCCGGCATACCGa > 1:205805/1‑121 (MQ=255)
cGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CCCCAACCGCCGGATCCGGCATACCGAt < 2:205805/121‑1 (MQ=255)
ggATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTCTC‑CTCCAACCGCCGGAACCGGCACACCGCTTAATGCAGCACCGTCACCGCTTCTTCCAGTCGGCTGGCGCGGCGGTTCACCCTCGCCGCCACCTGCGCACACTCTCCCACCAGCCCGGCGTTTTTCTGGGCGACCAg > 2:536138/1‑227 (MQ=255)
gcCTTACCCGGCCTACCCCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCCTCGAATGAGGCATTGGG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGc < 1:409489/227‑1 (MQ=255)
ccTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCAc > 1:487449/1‑228 (MQ=255)
ccTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCCTCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCCCGTCTTCCAGTCGGCTGGGCCGGTGTTTCACCATCTCCGCCACCTGCCCACTCCCTCCCACCCACTCGCCATTGTTCCGGTGGATCAGGTTAAGCTCACCCCCCCGACGGGTccccct > 2:516467/1‑223 (MQ=255)
acccccG‑CTACACTCCCCGC‑AGGCCTGATAAGAGGCG‑CAAGACTCGCATCAGGCTTTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCACGGGTCAGGCTGGa < 1:232546/225‑1 (MQ=255)
cacacccCCCAC‑GTGCCTGAAAAGCTGCC‑CCAGCATCGCATCAGGCATTGTG‑CCCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCACGGGTCAGGCTGGAAAGCCCAt < 1:536138/227‑1 (MQ=255)
ccgcccccccaaGGCCTG‑TAAGAAGGGCCCAGCATCGCATCAGGAATTGTG‑CCCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCCCCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCCCCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCACGGGTCAGGCTGGAAAGCCCAt < 1:555866/216‑1 (MQ=255)
ccccGCAAGGCCGTATAAAATGCC‑CCAGAACCGCATAAGGCA‑TGTGCCACCATCCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCACGGGTCAGGCTGGAAAGCCCATCGGcc < 1:340499/228‑1 (MQ=255)
ccccGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGGGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGGGATCAGGTTAAGCTCCTCCACTGCCCGGGTCAGGCCGGAAAGCCCATCGGCCt > 1:573284/1‑228 (MQ=255)
gC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGCAACCTGCGCCACCTCTTCCACCCACTCGGCATTTTTCTGGGGGATCCGGTTAAGCCCATCCACTCCCCGGTTCAGCCTGTAAACCCCAGCGGCCGGTTc > 2:488414/1‑228 (MQ=255)
gC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCCCTGCACGGGTCAGGCTGGAAAGCCCATCGGCCTTTTc > 1:207271/1‑228 (MQ=255)
gC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTCCACGGGTCAGGCTGGAAAGCCCATCGGCCCGTTc > 1:390427/1‑228 (MQ=255)
gC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTATCTGGGTGATCAGGTTCAGCTCATCCACTGCACGGGTCAGGCTGGAAAGCCCATCGGCCTCTTc > 1:294720/1‑228 (MQ=255)
gC‑AGGCCGGATGAGATGCG‑CCAGCCGCGCATCGGGCTTTGGT‑CCCCACCCGCCGGATCCGGCATACCGATTAATGCAGTTCCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCACGGGTCAGGCTGGAAAGCCCATCGGCCTGTTc < 1:516467/228‑1 (MQ=255)
aGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGCTTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGGTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGGGATCAGGTTAAGCTCATCCACTGCACGGGGCCGGCGGGGAACGCACTCGGCCTGTTccg > 2:373752/1‑227 (MQ=255)
tGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTTGGTGATCAGGTTAAGCTCATCCACTCCACGGGTCAGGCTGGCAAGCCCATCTGCCTGTTCCACCGt > 1:664953/1‑227 (MQ=255)
aTGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGGTAACCTCCTCCACTGCACGGGTACGGATGGGAAGCCCATCGCCCTGTCCCCGCGTTGCATGGc > 2:587988/1‑228 (MQ=255)
aTGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGACTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGCCATTTTTCTGGGTGTTCAGGTTAAGCTCATCCACTGCACGGTCCAGCCGGGCAAGCCCATCGGCCTGTTCCACCGTTGAATgga > 1:91546/1‑227 (MQ=255)
cagctcccgctcAGGCTTTGTG‑CCCCAACCGCCGGATCCGGCATTCCGATTAATGCAGTACCGGCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCACGGGTCAGGCTGGAAAGCCCATCGGCCTGTTCCAGCGTTGAATGGCTAATCt < 1:373752/218‑1 (MQ=255)
tgtg‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCCCCGCCACCTGCGCAACCTCTTCACCCCGCTCGGCATTTTTCTGGGTGCTCAGGTTAAGCCCATCCCCTGACCCGGTCAGGCTGGACAGCCACTCGGCCGTTTCCAACGTTGAATGGCTCATCTGGGCGGTCAACCggggg > 2:438818/1‑225 (MQ=255)
tgtg‑CCCCACCCGCCGGATCCGGCGTACGGTTTAATGCCGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCACGGGTCAGGCTGGAAAGCCCATCGGCCTGTTCCAGCGTTGAATGGCTAATCTGGGCGATCAACTGGGTGa < 2:22323/228‑1 (MQ=255)
gtg‑CCCCACCCGCCGGATCCGGCATGCCGAGTAAGGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCAATCTCTTCCTCCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCACGGGTCAGGCTGGAAAGCCCATCGGCCTGTTCCATCGTTGAATGGCTAATCTGGGCGATCAACTGGGTGa < 1:438818/227‑1 (MQ=255)
cTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCACGGGTCAGCCTGGCAAGCCCATCGGCCTGTTCCAGCGTTGAATGGATAATCTGGGCGACCACCTGGGTGACGt > 1:613835/1‑227 (MQ=255)
|
ATATCAGTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATTACGCAACTGGATTAATCGCC‑GCATCCGCCAGTGGCGCGGTGCAATT‑GCCGGATGCGACGCTTGAC‑GCGCCTTATCCGGCCTACACCCG‑CTACACACCCCGC‑AGGCCTGATAAGATGCG‑CCAGCATCGCATCAGGCATTGTG‑CTCCAACCGCCGGATCCGGCATACCGATTAATGCAGTACCGTCACCGCGTCTTCCAGTCGGCTGGCGCGGTGTTTCACCATCGCCGACACCTGCGCACTCTCTTCCACCAGCTCGGCATTTTTCTGGGTGATCAGGTTAAGCTCATCCACTGCACGGGTCAGGCTGGAAAGCCCATCGGCCTGTTCCAGCGTTGAATGGCTAATCTGGGCGATCAACTGGGTGACGT > NC_000913/3217326‑3217755
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
