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 |
|
A12 F133 I1 R1
|
102 |
83.9 |
4092546 |
96.1% |
3932936 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,853,909 |
A→G |
intergenic (+267/‑13) |
tisB → / → emrD |
toxic membrane persister formation peptide, LexA‑regulated/multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,853,909 | 0 | A | G | 97.2%
| 246.1
/ ‑2.2
| 72 | intergenic (+267/‑13) | tisB/emrD | toxic membrane persister formation peptide, LexA‑regulated/multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base A (1/1); new base G (37/33); total (38/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.56e-01 |
TCCTGGCGTATATCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAAGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATAT > NC_000913/3853813‑3854004
|
tCCTGGCGTATATCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCa < 2:691101/100‑1 (MQ=255)
cGTGTATCTGGCTATCATTCATCAATGTGATAGATTATTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAAGCATCCGTg < 2:960910/100‑1 (MQ=255)
tatCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATaa > 1:781185/1‑100 (MQ=255)
tatCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATaa < 1:842460/100‑1 (MQ=255)
tatCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATaa > 1:866515/1‑100 (MQ=255)
atCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAAt < 2:1496678/100‑1 (MQ=255)
atCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAAt < 1:1808193/100‑1 (MQ=255)
atCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCACATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAAt < 2:796219/100‑1 (MQ=255)
gCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGaaaa < 2:866512/100‑1 (MQ=255)
cTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAg > 2:1640565/1‑100 (MQ=255)
aCATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCa > 2:261364/1‑100 (MQ=255)
aTTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCaaa > 1:1757179/1‑100 (MQ=255)
aTTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCaaa > 1:1980730/1‑100 (MQ=255)
ttCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAg < 1:859495/100‑1 (MQ=255)
catcaATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGaa > 2:1580238/1‑100 (MQ=255)
tcaATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAAc > 2:946977/1‑100 (MQ=255)
tcaATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAAc > 2:683770/1‑100 (MQ=255)
tcaATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAAc < 1:946981/100‑1 (MQ=255)
tcaATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAAc < 1:412679/100‑1 (MQ=255)
tcaATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTGTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAAc < 2:1254971/100‑1 (MQ=255)
caATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACg > 2:1522110/1‑100 (MQ=255)
aaTGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGt < 2:569337/100‑1 (MQ=255)
aTGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTc < 1:1162642/100‑1 (MQ=255)
aTGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTc > 2:541966/1‑100 (MQ=255)
tgtgATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCa < 2:1850250/100‑1 (MQ=255)
tgtgATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCa > 1:1334737/1‑100 (MQ=255)
gtgATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCaa > 2:1877224/1‑100 (MQ=255)
gtgATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAAGCATCCGTGATAATGAAAAGGCAAAGAAACGTCaa > 1:1346800/1‑100 (MQ=255)
tgATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAAt > 2:315109/1‑100 (MQ=255)
aGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGt < 2:175280/100‑1 (MQ=255)
aGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGt < 1:424313/100‑1 (MQ=255)
ttCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTAt < 2:1857014/100‑1 (MQ=255)
tCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTAtt < 1:1263748/100‑1 (MQ=255)
ctctCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGa > 2:1979765/1‑100 (MQ=255)
tcCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGt < 2:1544340/100‑1 (MQ=255)
cccGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGtt > 2:1622609/1‑100 (MQ=255)
cccGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGtt > 2:1222874/1‑100 (MQ=255)
cccGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGtt < 1:2029559/100‑1 (MQ=255)
ccGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTg > 2:131266/1‑100 (MQ=255)
ccGCATTTATGGGAATGCGTAGTGACTTAGTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATg < 2:1759585/97‑1 (MQ=255)
cGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTgg < 1:1111160/100‑1 (MQ=255)
cGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTgg < 1:351508/100‑1 (MQ=255)
gCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGt > 2:1819923/1‑100 (MQ=255)
cATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTa < 1:1979783/100‑1 (MQ=255)
tttATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGTTAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTAtt < 2:1134582/100‑1 (MQ=255)
tATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTAc < 1:1819939/100‑1 (MQ=255)
tATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTAc > 1:295427/1‑100 (MQ=255)
tGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTc > 2:1743165/1‑100 (MQ=255)
gggAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCg < 1:1959175/100‑1 (MQ=255)
ggAATGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGt > 2:1322421/1‑100 (MQ=255)
aaTGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTgg < 1:459926/100‑1 (MQ=255)
tGCGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACATCAATTTGTTATTGATGTTGGTATTACTCGTGGcc > 2:975392/1‑100 (MQ=255)
cGTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGt > 2:248850/1‑100 (MQ=255)
gTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTc < 1:315110/100‑1 (MQ=255)
gTAGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTc < 1:541967/100‑1 (MQ=255)
aGTGACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCgg > 1:370626/1‑100 (MQ=255)
gACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCa > 1:477912/1‑100 (MQ=255)
gACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCa < 1:1845685/100‑1 (MQ=255)
gACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCa > 2:1561415/1‑100 (MQ=255)
gACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCa > 2:411414/1‑100 (MQ=255)
gACTTATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCa > 2:390844/1‑100 (MQ=255)
tATTCTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATg < 2:781182/100‑1 (MQ=255)
cTAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGgcgc < 1:1750231/100‑1 (MQ=255)
tAATTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCa > 2:388267/1‑100 (MQ=255)
aaTTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGTCCGTCGGTCAGATGGCGCa > 1:533151/1‑99 (MQ=255)
aaTTATTTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCaa < 1:1681733/100‑1 (MQ=255)
ttattTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAAc > 1:1207113/1‑100 (MQ=255)
tattTTTATAAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAAcc > 2:1114526/1‑100 (MQ=255)
ataAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTtata > 1:1367569/1‑100 (MQ=255)
ataAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTtata > 2:1167410/1‑100 (MQ=255)
taAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTatat > 1:526596/1‑100 (MQ=255)
taAAGGCATCCGTGATAATGAAAAGGCAAAGAAACGGCAATTTGTTATTTATGTTGTTAGTACTCGTGGCCGTCGGTCAGATGGCTCAAACCATTTatat > 2:678556/1‑100 (MQ=255)
|
TCCTGGCGTATATCTGGCTAACATTCATCAATGTGATAGATTCCTCTCCCGCATTTATGGGAATGCGTAGTGACTTATTCTAATTATTTTTATAAAAGCATCCGTGATAATGAAAAGGCAAAGAAACGTCAATTTGTTATTGATGTTGGTATTACTCGTGGCCGTCGGTCAGATGGCGCAAACCATTTATAT > NC_000913/3853813‑3854004
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
