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 |
1,420,124 |
A→G |
72.4% |
D131D (GAT→GAC) |
ccmG ← |
periplasmic thioredoxin of cytochrome c‑type biogenesis |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,420,124 | 0 | A | G | 72.4%
| 57.6
/ 19.3
| 54 | D131D (GAT→GAC) | ccmG | periplasmic thioredoxin of cytochrome c‑type biogenesis |
| Reads supporting (aligned to +/- strand): ref base A (5/10); new base G (18/21); total (23/31) |
| Fisher's exact test for biased strand distribution p-value = 5.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.15e-01 |
TAAGAAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGATTGCCTTCTGGCG > minE/1420072‑1420192
|
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:1027989/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:913070/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:871622/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:757087/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:339265/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:327924/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:2631420/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:2364156/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:2323622/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:1826908/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:1565670/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:1536397/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:1223780/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:1078358/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:1220519/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:1132193/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCGTCGCCATCAAACAgg > 1:1324782/1‑68 (MQ=255)
tAAGGAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCT‑ACATGCCGTCGCCATCAAACAgg > 1:1398522/1‑67 (MQ=255)
aaCGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAgc < 1:574282/69‑1 (MQ=255)
aaCGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAgc < 1:1792931/69‑1 (MQ=255)
tGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAg < 1:1068302/68‑1 (MQ=255)
tGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAg < 1:1782038/68‑1 (MQ=255)
tGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAg < 1:482207/68‑1 (MQ=255)
gACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGctc > 1:1786987/1‑69 (MQ=255)
gACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGctc > 1:1630574/1‑69 (MQ=255)
gACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGctc > 1:3025377/1‑69 (MQ=255)
gACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGctc > 1:2576921/1‑69 (MQ=255)
gACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGctc > 1:13447/1‑69 (MQ=255)
cGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTca < 1:1155528/69‑1 (MQ=255)
cGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTca < 1:137312/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:3258438/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:1009585/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:873073/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:134801/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:760476/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:1346070/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:580593/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:1670311/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:56104/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:1746504/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:1098613/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:3307903/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:1948450/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:3204997/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:3185789/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:2038689/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:2974653/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:2865868/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:2653350/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:2587078/69‑1 (MQ=255)
gCCCTAACATGCCGTCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGa < 1:2489891/69‑1 (MQ=255)
gCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTg < 1:2302505/68‑1 (MQ=255)
gCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTg < 1:2978906/68‑1 (MQ=255)
gCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTg < 1:2144943/68‑1 (MQ=255)
atcgccatcAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGATTGCCTTCTGGCg < 1:2829911/69‑1 (MQ=255)
atcgccatcAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGATTGCCTTCTGGCg < 1:2085309/69‑1 (MQ=255)
|
TAAGAAACGTTTCTGGCGCGCCATAGACACCGAGATCCAGCCCTAACATGCCATCGCCATCAAACAGGCTTAGCGCGTAAGGATTGCCCAGCTCTTTCAGCCAGCTGATTGCCTTCTGGCG > minE/1420072‑1420192
|
| 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
