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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,482,053 |
A→G |
14.6% |
D401G (GAT→GGT) |
ynbC → |
predicted hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,482,053 | 0 | A | G | 14.6%
| 96.5
/ 10.7
| 41 | D401G (GAT→GGT) | ynbC | predicted hydrolase |
| Reads supporting (aligned to +/- strand): ref base A (26/9); new base G (2/4); total (28/13) |
| Fisher's exact test for biased strand distribution p-value = 6.85e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
GTGTTGGCTGGCGCGGTATTCGCCAGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACATTGCCGCAGGGCATGGGCGCTATGTACT > W3110S.gb/1481984‑1482119
|
gtgtTGGCTGGCGCGGTATTCGCCAGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGAt > 1:1994098/1‑71 (MQ=255)
gtTGGCTGGCGCGGTATTCGCCAGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGAtct > 1:2542979/1‑71 (MQ=255)
ttGGCTGGCGCGGTATTCGCCAGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGAtctc > 1:3438539/1‑71 (MQ=255)
ttGGCTGGCGCGGTATTCGCCAGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGAtctc < 1:1212361/71‑1 (MQ=255)
cGCCAGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAg < 1:2674151/70‑1 (MQ=255)
cGCCAGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAg > 1:2293534/1‑70 (MQ=255)
ccAGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCaa < 1:3387945/60‑1 (MQ=255)
aGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAg > 1:1894811/1‑60 (MQ=255)
aGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAg > 1:180617/1‑60 (MQ=255)
aGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAg > 1:3299694/1‑60 (MQ=255)
aaaCCCATTTACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTg < 1:3136462/71‑1 (MQ=255)
cccATTTACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGtt > 1:3138226/1‑71 (MQ=255)
caattACAAATACTGATTAAACAAGCCGTTGCCGGTCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGa < 1:466447/68‑1 (MQ=255)
cATTTACAAATACTGATTAAACAAGCCGTTGCCGGTCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGa < 1:2433381/71‑1 (MQ=255)
aTTTACAAATACTGATTAAACAAGCCGTTGCCGGTCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGAc < 1:2220974/71‑1 (MQ=255)
tttACAAATACTGATTAAACAAGCCGTTGCCGGTCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGa < 1:1164313/69‑1 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGGTCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt > 1:3537285/1‑71 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAg > 1:3783928/1‑45 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAg > 1:2952514/1‑45 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt > 1:2284053/1‑71 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt > 1:3113771/1‑71 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt > 1:3451964/1‑71 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt > 1:3109309/1‑71 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt > 1:1893734/1‑71 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt > 1:424905/1‑71 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt > 1:478525/1‑71 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt > 1:127438/1‑71 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt > 1:1192312/1‑71 (MQ=255)
tACAAATACTGATTAAACAAGCCGTTGACGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt > 1:670379/1‑71 (MQ=255)
cAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAtt < 1:871580/69‑1 (MQ=255)
cAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAt < 1:1425526/68‑1 (MQ=255)
aTTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACATTGCCGCAGGGCa < 1:4030800/71‑1 (MQ=255)
ttAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGa < 1:650704/55‑1 (MQ=255)
tAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACATTGCCGCAGTGCATg > 1:3257980/1‑71 (MQ=255)
tAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACATTGCCGCAGGGCATg > 1:1713107/1‑71 (MQ=255)
gCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCTTGGTTGACATTGCCGCAGGGCATGGGCGCTa > 1:2858143/1‑71 (MQ=255)
gCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACATTGCCGCAGGGCATGGGCGCTa > 1:1921874/1‑71 (MQ=255)
gCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACATTGCCGCAGGGCATGGGCGCTa > 1:635770/1‑71 (MQ=255)
gTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACAt < 1:1625238/47‑1 (MQ=255)
gCCGGTCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACATTGCCGCAGGGCATGGGCGCTATGTACt > 1:1536947/1‑71 (MQ=255)
gCCGATCTCCACGCCAAAGGTTTAGCCGTCCGAGTGGTTGACATTGCCGCAGGGCATGGGCGCTATGTACt > 1:1669361/1‑71 (MQ=255)
|
GTGTTGGCTGGCGCGGTATTCGCCAGCGCAAAACCCATTTACAAATACTGATTAAACAAGCCGTTGCCGATCTCCACGCCAAAGGTTTAGCCGTCCGCGTGGTTGACATTGCCGCAGGGCATGGGCGCTATGTACT > W3110S.gb/1481984‑1482119
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
