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 |
2,635,541 |
T→C |
64.4% |
N226N (AAT→AAC) |
ugpB → |
glycerol‑3‑phosphate transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,635,541 | 0 | T | C | 64.4%
| 26.4
/ 21.2
| 42 | N226N (AAT→AAC) | ugpB | glycerol‑3‑phosphate transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (5/10); new base C (13/14); total (18/24) |
| Fisher's exact test for biased strand distribution p-value = 5.17e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACGGTCTGCCGTTTGCCAGCAAAAACAACGGCTTTGACGGCACGGACGCGGTGCTGGAGTTCAATAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAGGAGATGAACAAGAAGGGCGACTTCAGCTA > minE/2635477‑2635606
|
aCGGTCTGCCGTTTGCCAGCAAAAACAACGGCTTTGACGGCACGGACGCGGTGCTGGAGTTCAATAAGc < 1:1462678/69‑1 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACGGACGCGGTGCTGGAGTTCAATAAGCCGGAGCAGGTGa < 1:2486446/69‑1 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACGGACGCGGTGCTGGAGTTCAATAAGCCGGAGCAGGTGa < 1:1933096/69‑1 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:980859/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:1016145/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:979940/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:337109/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:312943/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:2996154/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:2676853/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:26628/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:1961976/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:1020079/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:115283/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:1467981/1‑69 (MQ=255)
ttGCCAGCAAAAACAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGa > 1:1530980/1‑69 (MQ=255)
aaaaCAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCg < 1:1773103/69‑1 (MQ=255)
aaaaCAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCg < 1:1055047/69‑1 (MQ=255)
aaaaCAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCg < 1:2772623/69‑1 (MQ=255)
aaaaCAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCg < 1:1562176/69‑1 (MQ=255)
aaaaCAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCg < 1:1676960/69‑1 (MQ=255)
aaaCAACGGCTTTGACGGCACGGACGCGGTGCTGGAGTTCAATAAGCCGGAGCAGGTGAAACACATCGc < 1:2907028/69‑1 (MQ=255)
aaaCAACGGCTTTGACGGCACGGACGCGGTGCTGGAGTTCAATAAGCCGGAGCAGGTGAAACACATCGc < 1:2999672/69‑1 (MQ=255)
aaaCAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCTGAGCAGGTGAAACACATCg < 1:3321058/68‑1 (MQ=255)
aaaCAACGGCTTTGACGGCACAGACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCg < 1:2480595/68‑1 (MQ=255)
aacaacGGCTTTGACGGCACGGACGCGGTGCTGGAGTTCAATAAGCCGGAGCAGGTGAAACACATCGcc < 1:1466742/69‑1 (MQ=255)
aacaacGGCTTTGACGGCACGGACGCGGTGCTGGAGTTCAATAAGCCGGAGCAGGTGAAACACATCGcc < 1:2775028/69‑1 (MQ=255)
aCGGCACGGACGCGGTGCTGGAGTTCAATAAGCCGGAGCAGGTGAAACACATCGCCATGCTCgagga < 1:2272833/67‑1 (MQ=255)
agACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAAGAGATGAACaa < 1:1734601/68‑1 (MQ=255)
agACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAAGAGATGAACaa < 1:401411/68‑1 (MQ=255)
agACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAAGAGATGAACaa < 1:1964569/68‑1 (MQ=255)
agACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAAGAGATGAACaa < 1:2768299/68‑1 (MQ=255)
agACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAAGAGATGAACaa < 1:1633244/68‑1 (MQ=255)
gACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAAGAGATGAACaa < 1:2260697/68‑1 (MQ=255)
gACGCGGTGCTTGAGTTCAACAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAAGAGATGAACaa < 1:1734034/68‑1 (MQ=255)
cgGTGCTGGAGTTCAATAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAGGAGATGAACaagaag > 1:322717/1‑68 (MQ=255)
cgGTGCTGGAGTTCAATAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAGGAGATGAACAAGAAgg > 1:733947/1‑69 (MQ=255)
gTTCAATAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAGGAGATGAACAAGAAGGGCGACTTCAg < 1:1970751/69‑1 (MQ=255)
ttCAATAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAGGAGATGAACAAGAAGGGCGACTTCAg < 1:3193690/68‑1 (MQ=255)
cAATAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAGGAGATGAACaaga > 1:2926947/1‑53 (MQ=255)
cAATAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAGGAGATGAACAAGAAGGGCGACTTCAGCTa > 1:3019830/1‑69 (MQ=255)
cAATAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAGGAGATGAACAAGAAGGGCGACTTCAGCTa > 1:2761491/1‑69 (MQ=255)
|
ACGGTCTGCCGTTTGCCAGCAAAAACAACGGCTTTGACGGCACGGACGCGGTGCTGGAGTTCAATAAGCCGGAGCAGGTGAAACACATCGCCATGCTCGAGGAGATGAACAAGAAGGGCGACTTCAGCTA > minE/2635477‑2635606
|
| 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
