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 |
|
A1 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,682,573 |
G→A |
L211L (CTG→TTG) |
ilvD ← |
dihydroxyacid dehydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,682,573 | 0 | G | A | 80.0%
| 67.2
/ 14.7
| 35 | L211L (CTG→TTG) | ilvD | dihydroxyacid dehydratase |
| Reads supporting (aligned to +/- strand): ref base G (0/7); new base A (9/19); total (9/26) |
| Fisher's exact test for biased strand distribution p-value = 1.53e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.14e-01 |
ACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAGCGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCGCAGGTCGGACA > W3110S.gb/3682520‑3682639
|
aCGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAg < 1:778757/70‑1 (MQ=255)
aCGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAg < 1:3929602/70‑1 (MQ=255)
aCGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAg < 1:3440788/70‑1 (MQ=255)
aCGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAg < 1:2935939/70‑1 (MQ=255)
ggTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAGCGCTTCGGTCAGGCAGTTc < 1:1610422/71‑1 (MQ=255)
ggTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAGCGCTTCGGGCAGGCAGTTc < 1:3715311/71‑1 (MQ=255)
gCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGa < 1:3309132/71‑1 (MQ=255)
ggTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAg > 1:719868/1‑71 (MQ=255)
agcagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAg > 1:1104287/1‑60 (MQ=255)
agcagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAg > 1:768388/1‑60 (MQ=255)
agcagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAg > 1:4065545/1‑60 (MQ=255)
agcagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAg > 1:3612676/1‑60 (MQ=255)
agcagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAg > 1:1191269/1‑60 (MQ=255)
agcagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAg > 1:2359584/1‑60 (MQ=255)
agcagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAg > 1:1511882/1‑60 (MQ=255)
agcagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAg > 1:2148487/1‑60 (MQ=255)
agcagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTaaa < 1:1084102/71‑1 (MQ=255)
gcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATc < 1:2865737/71‑1 (MQ=255)
gcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATc < 1:3076347/71‑1 (MQ=255)
gcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATc < 1:1419059/71‑1 (MQ=255)
gcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATc < 1:2161121/71‑1 (MQ=255)
gcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATc < 1:1655147/71‑1 (MQ=255)
cGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTaaa < 1:244949/48‑1 (MQ=255)
cGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTaaa < 1:805525/48‑1 (MQ=255)
cGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTaaa < 1:362914/48‑1 (MQ=255)
cGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTaaa < 1:3516703/48‑1 (MQ=255)
cGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTaaa < 1:3360935/48‑1 (MQ=255)
cGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTaaa < 1:2666817/48‑1 (MQ=255)
cGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTaaa < 1:2398848/48‑1 (MQ=255)
ggCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCGCAGGTCGGa < 1:3301040/71‑1 (MQ=255)
cccAGCGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCGCAGGTCGGaca < 1:1703341/71‑1 (MQ=255)
cccAGCGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCGCAGGTCGGaca < 1:1348639/71‑1 (MQ=255)
cccAGCGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCGCAGGTCGGaca < 1:2929345/71‑1 (MQ=255)
cccAGCGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCGCAGGTCGGaca < 1:904796/71‑1 (MQ=255)
cccAGCGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCGCAGGGCGGaca < 1:9223/71‑1 (MQ=255)
|
ACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAGCGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCGCAGGTCGGACA > W3110S.gb/3682520‑3682639
|
| 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
