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 |
2,218,861 |
C→T |
37.3% |
V32V (GTC→GTT) |
yhdH → |
predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,218,861 | 0 | C | T | 37.3%
| 44.2
/ 45.8
| 75 | V32V (GTC→GTT) | yhdH | predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base C (33/14); new base T (15/13); total (48/27) |
| Fisher's exact test for biased strand distribution p-value = 2.14e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
AAACTCTCGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAATC > minE/2218800‑2218924
|
aaaCTCTCGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTc < 1:2745605/69‑1 (MQ=255)
ctctCGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCAc > 1:3277612/1‑68 (MQ=255)
ctctCGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACt > 1:88030/1‑69 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:3195312/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:2707262/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:3333393/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:3427410/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:2553197/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:2936667/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:2374458/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:2099487/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:1715226/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:1712728/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:3257297/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:1159794/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:1279881/1‑68 (MQ=255)
tcGCATCAGTACAGACTCTGGACGAAAGTCGCATGCCGGAAGGCGATGTCACGGTTGATGTTCACTgg > 1:24138/1‑68 (MQ=255)
tcGCATAAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAAGGCGATCTCACGGTTGATGTTCACTgg > 1:435752/1‑68 (MQ=255)
aTCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGa < 1:1183312/68‑1 (MQ=255)
aTCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGa < 1:110158/68‑1 (MQ=255)
aTCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGa < 1:3018111/68‑1 (MQ=255)
aTCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGa < 1:2048228/68‑1 (MQ=255)
aTCAGTACAGACTCAGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGa < 1:1350478/68‑1 (MQ=255)
aGTACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGcc > 1:1080582/1‑68 (MQ=255)
aGTACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGcc > 1:327354/1‑68 (MQ=255)
tACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTg > 1:507033/1‑68 (MQ=255)
tACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTg < 1:307489/68‑1 (MQ=255)
tACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTg > 1:3270196/1‑68 (MQ=255)
tACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGa > 1:3259234/1‑69 (MQ=255)
ctctGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACtata < 1:1311818/69‑1 (MQ=255)
ctctGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACtata < 1:1380096/69‑1 (MQ=255)
ctGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATaaa < 1:3388759/69‑1 (MQ=255)
ctGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATaaa < 1:149885/69‑1 (MQ=255)
ctGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATaaa < 1:1705254/69‑1 (MQ=255)
tGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTg > 1:250394/1‑59 (MQ=255)
tGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTg > 1:1256559/1‑59 (MQ=255)
tGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTg > 1:2156729/1‑59 (MQ=255)
tGGACGAAAGTCGCCTGACGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTg > 1:642602/1‑59 (MQ=255)
aGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCt > 1:928564/1‑68 (MQ=255)
aGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTg > 1:1033388/1‑69 (MQ=255)
aGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTg > 1:422805/1‑69 (MQ=255)
aGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTg > 1:193254/1‑69 (MQ=255)
aGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTg > 1:728583/1‑69 (MQ=255)
gTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGaaaa > 1:2675324/1‑69 (MQ=255)
gTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGaaaa > 1:3276489/1‑69 (MQ=255)
gTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGaaaa > 1:2355515/1‑69 (MQ=255)
gTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGaaaa > 1:446427/1‑69 (MQ=255)
gTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGaaaa > 1:3220809/1‑69 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:384042/69‑1 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:557046/69‑1 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:910860/69‑1 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:1044751/69‑1 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:3033123/69‑1 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:1142363/69‑1 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:1225785/69‑1 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:1227746/69‑1 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:145096/69‑1 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:1740844/69‑1 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:2571467/69‑1 (MQ=255)
aCGGTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:2837472/69‑1 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCt > 1:2562144/1‑44 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGAt > 1:2095894/1‑50 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTa > 1:653735/1‑58 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc > 1:2603792/1‑69 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc > 1:2514702/1‑69 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc > 1:2247634/1‑69 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc > 1:473321/1‑69 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc > 1:2074157/1‑69 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc > 1:69369/1‑69 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc > 1:2940021/1‑69 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc > 1:3073832/1‑69 (MQ=255)
aCGGTCGATGTTCACTGGTCGAGCCTGAACTAAAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc > 1:3013106/1‑69 (MQ=255)
ggTTGATGTTCACTGGTCGAGCCTGAACTACAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAatc < 1:2564038/67‑1 (MQ=255)
gTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCt < 1:177163/41‑1 (MQ=255)
gTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCt < 1:2785446/41‑1 (MQ=255)
|
AAACTCTCGCATCAGTACAGACTCTGGACGAAAGTCGCCTGCCGGAGGGCGATGTCACGGTCGATGTTCACTGGTCGAGCCTGAACTATAAAGATGCGCTGGCGATTACCGGTAAGGGAAAAATC > minE/2218800‑2218924
|
| 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
