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 |
1,018,974 |
T→C |
28.0% |
S478P (TCG→CCG) ‡ |
ydgA → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,018,974 | 0 | T | C | 28.0%
| 82.1
/ 34.5
| 82 | S478P (TCG→CCG) ‡ | ydgA | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (21/38); new base C (15/8); total (36/46) |
| Fisher's exact test for biased strand distribution p-value = 2.48e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.18e-01 |
CACCAGCCTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGCGATGCCAGCTCTTAACGTTCCGGCTGT > minE/1018922‑1019029
|
caccaGCCTGCAATATGCTAACGGTCAGATAACGTTCAACGGGCAGAAAATGCCACTGGAAGATTtcgt < 1:2644108/69‑1 (MQ=255)
caccaGCCTGCAATATGCTAACGGTCAGATAACGTTAAACGGGCAGAAGATGCCACTGGAAGATTtcgt < 1:379804/69‑1 (MQ=255)
caccaGCCTGCAATATGCTAACGGTCAGATAACGTTAAACGGGCAGAAAATGCCACTGGAAGATTtcgt < 1:3400135/69‑1 (MQ=255)
caccaGCCTGCAATATGCTAACGGTCAGATAACGTTAAACGGGCAGAAAATGCCACTGGAAGATTtcgt < 1:637103/69‑1 (MQ=255)
caccaGCCTGCAATATGCTAACGGTCAGATAACGTTAAACGGGCAGAAAATGCCACTGGAAGATTtcgt < 1:2771945/69‑1 (MQ=255)
caccaGCCTGCAATATGCTAACGGTCAGATAACGTTAAACGGGCAGAAAATGCCACTGGAAGATTtcgt < 1:1690159/69‑1 (MQ=255)
caccaGCCTGCAATATGCTAACGGTCAGATAACGTTAAACGGGCAGAAAATGCCACTGGAAGATTtcgt < 1:353388/69‑1 (MQ=255)
accaGCCTGCAATATGCTAACGGTCAGATAACGTTAAACGGGCAGAAAATGCCACTGGAAGATTtcgt < 1:799703/68‑1 (MQ=255)
caGCCTGCAATATGCTAACGGTCAGATAACGTTAAATGGTCAGAAAATGTCGTTAGAAGATTTTGTTgg < 1:388331/69‑1 (MQ=255)
caGCCTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTgg < 1:2680072/69‑1 (MQ=255)
caGCCTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTgg < 1:865554/69‑1 (MQ=255)
caGCCTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTgg < 1:2737774/69‑1 (MQ=255)
caGCCTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTgg < 1:1228274/69‑1 (MQ=255)
caGCCTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTgg < 1:2419031/69‑1 (MQ=255)
caGCCTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTgg < 1:452952/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCAtc < 1:2810049/69‑2 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg > 1:3085297/1‑69 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:2741068/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:265507/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg > 1:2784837/1‑69 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:52646/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:2845258/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg > 1:286629/1‑69 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg > 1:2995506/1‑69 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:3025398/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:873748/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg > 1:3125949/1‑69 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:3389384/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:3425692/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:3430311/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:365364/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg > 1:418819/1‑69 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg > 1:1143340/1‑69 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:631336/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg > 1:2511175/1‑69 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:116453/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:1983358/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:1452599/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg > 1:1618288/1‑69 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:2100319/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg > 1:1871578/1‑69 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:673901/69‑1 (MQ=255)
cTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:1995601/69‑1 (MQ=255)
cTGCAATATGCTAACGGACAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg > 1:3210585/1‑69 (MQ=255)
tGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:636796/68‑1 (MQ=255)
tGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:3154733/68‑1 (MQ=255)
tGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:2381707/68‑1 (MQ=255)
cAATATGCTAACGGTCAGATAACGTTAAATGTGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:2956066/66‑1 (MQ=255)
tGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGc < 1:1232117/66‑1 (MQ=255)
tGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGc < 1:269786/66‑1 (MQ=255)
tGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGc < 1:1903888/66‑1 (MQ=255)
tGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGCGAt > 1:495025/1‑69 (MQ=255)
tGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGCGAt > 1:3012663/1‑69 (MQ=255)
cAGATAACGTTAAATGGGCAGAAAATGTCGTTagaa > 1:699269/1‑36 (MQ=255)
cAGATAACGTTAAATGGGCAGAAAATGTCGTTagaa > 1:2108297/1‑36 (MQ=255)
cAGATAACGTTAAATGGGCAGAAAATGTCGTTagaa > 1:220110/1‑36 (MQ=255)
aaCGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:2860855/46‑1 (MQ=255)
tAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGc > 1:3273553/1‑46 (MQ=255)
tAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGc > 1:2115512/1‑46 (MQ=255)
tAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGc > 1:2384048/1‑46 (MQ=255)
tAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGc > 1:2518184/1‑46 (MQ=255)
tAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGc > 1:420558/1‑46 (MQ=255)
acgggCAGAAAATGCCACTGGTAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:111778/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGTTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:1668352/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:459740/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:700570/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:1112237/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:3307260/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:3199003/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:2785612/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:252835/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:2258134/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:2091586/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:1712031/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:154314/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATGCCGGCATTAAACGTTCCGGCTg > 1:1005547/3‑69 (MQ=255)
acgggCAGAAAATGCCACTGGAAGATTTCGTGGGTATGTTTGCGATCCCGGCATTAAACGTTCCGGCTg > 1:901256/3‑69 (MQ=255)
tGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGCGATGCCAGCTCTTAACGTTCCGGCTGt < 1:3065466/69‑1 (MQ=255)
tGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGCGATGCCAGCTCTTAACGTTCCGGCTGt < 1:1980236/69‑1 (MQ=255)
gggCAGAAAATGTCGTTAGAAGATTTTGTTGGCATg < 1:818790/36‑1 (MQ=255)
gggCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGCGATGCCAGCTCTTAACGTTCCGGCTGt < 1:2527297/68‑1 (MQ=255)
gggCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGCGATGCCAGCTCTTAACGTTCCGGCTGt < 1:1804525/68‑1 (MQ=255)
|
CACCAGCCTGCAATATGCTAACGGTCAGATAACGTTAAATGGGCAGAAAATGTCGTTAGAAGATTTTGTTGGCATGTTTGCGATGCCAGCTCTTAACGTTCCGGCTGT > minE/1018922‑1019029
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
