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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,403,432 |
A→G |
63.6% |
I140I (ATT→ATC) |
dapF ← |
diaminopimelate epimerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,403,432 | 0 | A | G | 63.6%
| 54.1
/ 51.0
| 85 | I140I (ATT→ATC) | dapF | diaminopimelate epimerase |
| Reads supporting (aligned to +/- strand): ref base A (18/13); new base G (36/18); total (54/31) |
| Fisher's exact test for biased strand distribution p-value = 4.87e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 101 total aligned reads displayed.
TGAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCC > minE/2403364‑2403497
|
tGAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCata < 1:863145/69‑1 (MQ=255)
tGAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCata < 1:2715457/69‑1 (MQ=255)
tGAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCata < 1:2800446/69‑1 (MQ=255)
tGAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCata < 1:3145253/69‑1 (MQ=255)
tGAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCata < 1:334088/69‑1 (MQ=255)
gAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCataa < 1:3305853/69‑1 (MQ=255)
gAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCataa < 1:1958624/69‑1 (MQ=255)
gAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCataa < 1:2029809/69‑1 (MQ=255)
gAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCataa < 1:2279861/69‑1 (MQ=255)
gAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCataa < 1:1317135/69‑1 (MQ=255)
gAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCataa < 1:843990/69‑1 (MQ=255)
gAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCataa < 1:1007425/69‑1 (MQ=255)
gAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCataa < 1:846005/69‑1 (MQ=255)
gAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCataa < 1:1197008/69‑1 (MQ=255)
gAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCCCataa < 1:72622/69‑1 (MQ=255)
tCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAatat > 1:3005942/1‑69 (MQ=255)
tCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAatat > 1:1530981/1‑69 (MQ=255)
tCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAatat > 1:664685/1‑69 (MQ=255)
tCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAatat > 1:178303/1‑69 (MQ=255)
cGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCtttt > 1:373380/1‑68 (MQ=255)
cGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCtttt > 1:805893/1‑68 (MQ=255)
cGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCtttt > 1:189934/1‑68 (MQ=255)
cGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTc > 1:1282259/1‑69 (MQ=255)
cGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTc > 1:874314/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2666315/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:1000210/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2108569/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2159124/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2175336/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2440756/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:355092/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2823932/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:982255/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:3347166/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:1345605/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:1954590/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:1517806/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:122122/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTCTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:626887/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTccac > 1:1697805/1‑60 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTcca > 1:2449386/1‑60 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGtt > 1:1337554/1‑68 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGtt > 1:1331406/1‑68 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2596683/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:3218376/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2599015/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2747737/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2830041/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2995312/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:3127892/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:3159866/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2546491/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2516793/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2413749/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:1200624/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:791706/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTACACTTTGTTa > 1:791870/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTAGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:790327/1‑69 (MQ=255)
aTCGACACCACGACACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTg > 1:3169480/1‑66 (MQ=255)
aTCGACACAACGCCACATAAGAATGTCTGCTCGGCGGCGCGCATGAATTAGGTCt > 1:396916/1‑55 (MQ=255)
gACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAgc > 1:345720/1‑68 (MQ=255)
gACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAgc > 1:3020558/1‑68 (MQ=255)
cacGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGaaa > 1:1130452/1‑69 (MQ=255)
gccgcATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAacgg < 1:1451380/69‑1 (MQ=255)
gccgcATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAacgg < 1:3054866/69‑1 (MQ=255)
aGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAacggcacggc > 1:257105/1‑67 (MQ=255)
aGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAacggcacggc > 1:2234258/1‑67 (MQ=255)
aGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAacggcacggc > 1:2590816/1‑67 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:336513/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:1105262/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:915114/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:1060580/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:3191070/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:1459513/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:3072584/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:2323888/69‑1 (MQ=255)
tGCTCGGCGGCTCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:202777/42‑1 (MQ=255)
tGCTCGGCGGCTCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:729958/42‑1 (MQ=255)
tGCTCGGCGGCGCGCTTGATATAGGTCTTTTCCACTTTGTTa < 1:2860530/42‑1 (MQ=255)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:2075113/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1189465/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1903481/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1812577/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1152570/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1953314/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:585684/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1640199/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1275393/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1562143/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1075029/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:3283970/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:2025570/42‑1 (MQ=38)
gCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1901532/41‑1 (MQ=38)
cTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:3274241/40‑1 (MQ=38)
cTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGaa > 1:1791726/1‑69 (MQ=255)
cTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGaa > 1:396122/1‑69 (MQ=255)
cTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGaa > 1:3421459/1‑69 (MQ=255)
cATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGcc < 1:1752164/69‑1 (MQ=255)
cATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGcc < 1:3181556/69‑1 (MQ=255)
cATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGcc < 1:3268897/69‑1 (MQ=255)
|
TGAATCACGCAATGCGGATTTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCC > minE/2403364‑2403497
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
