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 |
|
A5 F28 I3 R1
|
375 |
42.1 |
2927644 |
71.4% |
2090337 |
57.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,443,978 |
G→A |
Q45Q (CAG→CAA) |
thiS → |
sulphur carrier protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,443,978 | 0 | G | A | 79.2%
| 42.8
/ 6.2
| 24 | Q45Q (CAG→CAA) | thiS | sulphur carrier protein |
| Reads supporting (aligned to +/- strand): ref base G (5/0); new base A (0/19); total (5/19) |
| Fisher's exact test for biased strand distribution p-value = 2.35e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.69e-01 |
GACCAACGACAAGCGGGCGCGGCTCTGGCGATTAATCAGCAAATCGTCCCGCGTGAGCAGTGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCTTTT > W3110S.gb/3443919‑3444022
|
gACCAACGACAAGCGGGCGCGGCTCTGGCGATTAATCAGCAAATCGTCCCGCGTGAGCAGTg > 1:1554999/1‑62 (MQ=255)
gACCAACGACAAGCGGGCGCGGCTCTGGCGATTAATCAGCAAATCGTCCCGCGTGAGCAGTg > 1:1776615/1‑62 (MQ=255)
gACCAACGACAAGCGGGCGCGGCTCTGGCGATTAATCAGCAAATCGTCCCGCGTGAGCAGTg > 1:2181029/1‑62 (MQ=255)
gACCAACGACAAGCGGGCGCGGCTCTGGCGATTAATCAGCAAATCGTCCCGCGTGAGCAGTg > 1:2630225/1‑62 (MQ=255)
gACCAACGACAAGCGGGCGCGGCTCTGGCGATTAATCAGCAAATCGTCCCGCGTGAGCAGTg > 1:2810993/1‑62 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:981975/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:119173/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:859659/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:728038/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:636158/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:599228/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:417364/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:408693/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:360933/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:2896624/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:2893084/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:2828176/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:2350652/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:1976775/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:1922685/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:1608643/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:1604272/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:1510813/62‑1 (MQ=255)
aTCGTCCCGCGGGAACAATGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCtttt < 1:1212242/62‑1 (MQ=255)
|
GACCAACGACAAGCGGGCGCGGCTCTGGCGATTAATCAGCAAATCGTCCCGCGTGAGCAGTGGGCGCAACATATCGTGCAGGATGGCGACCAGATCCTGCTTTT > W3110S.gb/3443919‑3444022
|
| 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
