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 |
2,670,042 |
C→A |
54.5% |
Q474K (CAA→AAA) |
malP → |
maltodextrin phosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,670,042 | 0 | C | A | 54.5%
| 3.3
/ 86.0
| 77 | Q474K (CAA→AAA) | malP | maltodextrin phosphorylase |
| Reads supporting (aligned to +/- strand): ref base C (27/8); new base A (36/6); total (63/14) |
| Fisher's exact test for biased strand distribution p-value = 3.84e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCCCACGTCGCTGGATCAAACAGTGCAACCCGGCACTGGCGGCTCTGTTGGATAAATCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGAAAT > minE/2669979‑2670108
|
aCCCCACGTCGCTGGATCAAACAGTGCAACCCGGCACTGGCGGCTCTGTTGGATAAATCACTGCaaa > 1:2384613/1‑67 (MQ=255)
aCCCCACGTCGCTGGATCAAACAGTGCAACCCGGCACTGGCGGCTCTGTTGGATAAATCACTGCaaa > 1:182841/1‑67 (MQ=255)
aCCCCACGTCGCTGGATCAAACAGTGCAACCCGGCACTGGCGGCTCTGTTGGATAAATCACTGCaaa > 1:1080327/1‑67 (MQ=255)
gTGCAACCCGGCACTGGCGGCTCTGTTGGATAAATCACTGCAAAAAGAGTGGGCTAACGATCTCGATCa < 1:969385/69‑1 (MQ=255)
gTGCAACCCGGCACTGGCGGCTCTGTTGGATAAATCACTGCAAAAAGAGTGGGCTAACGATCTCGATCa < 1:2405236/69‑1 (MQ=255)
ggCACTGGCGGCTCTGTTGGATAAATCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCaa < 1:3074922/69‑1 (MQ=255)
ggCACTGGCGGCTCTGTTGGATAAATCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCaa < 1:635487/69‑1 (MQ=255)
cTGGCGGCTCTGTTGGATAAATCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAAtat > 1:1052800/1‑66 (MQ=255)
ttGGATAAATCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGaaaaa < 1:1079934/63‑1 (MQ=255)
ttGGATAAATCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGaaaaa < 1:1721910/63‑1 (MQ=255)
ttGGATAAATCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGaaaaa < 1:2870701/63‑1 (MQ=255)
ttGGATAAATCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGaaaaa < 1:389496/63‑1 (MQ=255)
ttGGATAAATCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGaaaaa < 1:968692/63‑1 (MQ=255)
ttgATAAATCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGaaaaa < 1:2927205/60‑1 (MQ=255)
aTAAATCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCtgat < 1:2192440/68‑1 (MQ=255)
aTAAATCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCtgat < 1:2522555/68‑1 (MQ=255)
aTAAATCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCtgat < 1:2772844/68‑1 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCtgatgac > 1:688535/1‑68 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCtgatga > 1:1956939/1‑68 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCtgatga > 1:2691415/1‑68 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTgatgat > 1:1952942/1‑69 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTgatgat > 1:1551003/1‑69 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTgatgat > 1:3243569/1‑69 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTgatgat > 1:2024135/1‑69 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTgatgat > 1:950826/1‑69 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTgatgat > 1:2323410/1‑69 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTgatgat > 1:750010/1‑69 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTgatgat > 1:2999630/1‑69 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTgatgat > 1:2825944/1‑69 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTgatgat > 1:112086/1‑69 (MQ=255)
aaaTCACTGCAAAAAGAGTGGGCTAACGATCACGATCAGCTGAGCAATCTGGaaaa > 1:930625/1‑56 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:1043337/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:355056/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:2742749/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:2784360/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:878009/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:849794/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:76264/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:3097427/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:3170136/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:463110/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:329216/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:2018250/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:1523850/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:1472339/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:1539425/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:2733235/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:1802426/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:2234844/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:235889/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:2365139/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:106832/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:1014538/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:1057164/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:2435693/1‑58 (MQ=255)
aTCACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTc > 1:2379719/1‑58 (MQ=255)
cACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTCGCTGATGATGCGa > 1:1914001/1‑69 (MQ=255)
cACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTCGCTGATGATGCGa > 1:1195716/1‑69 (MQ=255)
cACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTCGCTGATGATGCGa > 1:2537978/1‑69 (MQ=255)
cACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTCGCTGATGATGCGa > 1:2965694/1‑69 (MQ=255)
cACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTCGCTGATGATGCGa > 1:2605103/1‑69 (MQ=255)
cACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTCGCTGATGATGCGa > 1:1291795/1‑69 (MQ=255)
cACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTCGCTGATGATGCGa > 1:1402699/1‑69 (MQ=255)
cACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTCGCTGATGATGCGa > 1:632710/1‑69 (MQ=255)
cACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTCGCTGATGATGCGa > 1:633831/1‑69 (MQ=255)
cACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTCGCTGATGATGCGa > 1:633875/1‑69 (MQ=255)
cACTGAAAAAAGAGTGGGCTAACGATCTCGATCAACTGATCAATCTGGAAAAATTCGCTGATGATGCGa > 1:2256384/1‑69 (MQ=255)
aCTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGaa > 1:1664573/1‑69 (MQ=255)
aCTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGaa > 1:1505732/1‑69 (MQ=255)
aCTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGaa > 1:634628/1‑69 (MQ=255)
aCTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGaa > 1:587923/1‑69 (MQ=255)
aCTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGaa > 1:481061/1‑69 (MQ=255)
aCTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGaa > 1:3426043/1‑69 (MQ=255)
aCTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGaa > 1:2792969/1‑69 (MQ=255)
aCTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGaa > 1:2662469/1‑69 (MQ=255)
aCTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGaa > 1:2666556/1‑69 (MQ=255)
tGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGAAAt < 1:141997/69‑1 (MQ=255)
|
ACCCCACGTCGCTGGATCAAACAGTGCAACCCGGCACTGGCGGCTCTGTTGGATAAATCACTGCAAAAAGAGTGGGCTAACGATCTCGATCAGCTGATCAATCTGGAAAAATTCGCTGATGATGCGAAAT > minE/2669979‑2670108
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
