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 |
1,474,576 |
C→T |
34.3% |
T720T (ACC→ACT) |
nrdA → |
ribonucleoside diphosphate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,474,576 | 0 | C | T | 34.3%
| 70.0
/ 48.8
| 90 | T720T (ACC→ACT) | nrdA | ribonucleoside diphosphate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (19/40); new base T (16/15); total (35/55) |
| Fisher's exact test for biased strand distribution p-value = 1.10e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-02 |
ACTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGGCGCTGAAGACGC > minE/1474509‑1474638
|
aCTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCg < 1:88424/69‑1 (MQ=255)
aCTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCg < 1:1390977/69‑1 (MQ=255)
aCTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCg < 1:1163326/69‑1 (MQ=255)
aCTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCg < 1:1791737/69‑1 (MQ=255)
aCTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCg < 1:1244570/69‑1 (MQ=255)
aCTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCg < 1:1445629/69‑1 (MQ=255)
cTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCg < 1:1321509/68‑1 (MQ=255)
aCGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGcc > 1:2604203/1‑68 (MQ=255)
ccGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCg < 1:3421585/61‑1 (MQ=255)
ccGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACaaa < 1:355689/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:2521474/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:2581494/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:151977/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:1310183/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:250757/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:1725847/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:1753154/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:2614312/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:551899/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:2722382/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:1194577/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:2867767/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:3227849/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCg < 1:2196227/69‑1 (MQ=255)
cACGTTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCAACAAATTCg < 1:3346393/69‑1 (MQ=255)
aCGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCgg > 1:2114635/1‑69 (MQ=255)
aaaaGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGta < 1:899070/69‑1 (MQ=255)
aaaGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGtat > 1:901339/1‑69 (MQ=255)
aaaGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGtat > 1:1814208/1‑69 (MQ=255)
ccGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAg < 1:3045434/69‑1 (MQ=255)
ccGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAg < 1:3315327/69‑1 (MQ=255)
ccGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAg < 1:2217467/69‑1 (MQ=255)
ccGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAg < 1:2051991/69‑1 (MQ=255)
ccGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAg < 1:914971/69‑1 (MQ=255)
ccGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTACCAg < 1:2764725/69‑1 (MQ=255)
ccGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGGCAAAACACTGTATTATCAg < 1:2388969/69‑1 (MQ=255)
cGATGCAGCAGTTGCTGAAAGCCCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:2714516/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACaa > 1:1334953/1‑40 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:2941854/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:575489/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:1419704/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:2510798/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:1642182/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:2478048/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:2391938/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:1168617/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:2301066/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:3065145/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:1138146/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:97155/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:1008425/1‑52 (MQ=255)
cGATGCAGCAGTTGCTGAAAGACCTGCTCACTGCCTACAAATTCGGGGTCaa > 1:86035/1‑52 (MQ=255)
gcagcaGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAacac > 1:2362489/1‑69 (MQ=255)
gcagcaGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAacac > 1:2645844/1‑69 (MQ=255)
cagcagTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACAcc < 1:1249096/69‑1 (MQ=255)
cagTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGt < 1:1401865/69‑1 (MQ=255)
cagTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGt < 1:1004866/69‑1 (MQ=255)
cagTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGt < 1:511700/69‑1 (MQ=255)
cagTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGt < 1:2083213/69‑1 (MQ=255)
cagTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGt < 1:2426712/69‑1 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGt < 1:2590316/47‑1 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGt < 1:874723/47‑1 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGt < 1:2296319/47‑1 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGt < 1:2357268/47‑1 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGt < 1:2469571/47‑1 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGt < 1:1427862/47‑1 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGAc > 1:1588760/1‑67 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACgg > 1:1185558/1‑69 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACgg > 1:2783432/1‑69 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACgg > 1:3174526/1‑69 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACgg > 1:3188399/1‑69 (MQ=255)
gCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACgg > 1:648662/1‑69 (MQ=255)
tGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgc < 1:342786/68‑1 (MQ=255)
tGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgc < 1:1005816/68‑1 (MQ=255)
tGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgc < 1:3037925/68‑1 (MQ=255)
tGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgc < 1:2833686/68‑1 (MQ=255)
tGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgc < 1:2674773/68‑1 (MQ=255)
tGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgc < 1:1786178/68‑1 (MQ=255)
tGAAACACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgc < 1:3344636/68‑1 (MQ=255)
aaGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgcgc > 1:3242438/1‑67 (MQ=255)
aaGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgcgc > 1:2684420/1‑67 (MQ=255)
aaGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgcgc > 1:1961720/1‑67 (MQ=255)
aaGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgcgc > 1:1779499/1‑67 (MQ=255)
aaGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgcgc > 1:1292786/1‑67 (MQ=255)
aaGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGgcg > 1:1128894/1‑66 (MQ=255)
ccTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGGCGCTGAAGa < 1:2624820/69‑1 (MQ=255)
ccTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGGCGCTGAAGa < 1:1908977/69‑1 (MQ=255)
ccTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGGCGCTGAAGa < 1:1896817/69‑1 (MQ=255)
ccTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGGCGCTGAAGa < 1:985943/69‑1 (MQ=255)
cTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGGCGCTTAAGACGc > 1:2190109/1‑68 (MQ=255)
|
ACTACGATCCGTCACGCTTCCCGTCAGGAAAAGTGCCGATGCAGCAGTTGCTGAAAGACCTGCTCACCGCCTACAAATTCGGGGTCAAAACACTGTATTATCAGAACACCCGTGACGGCGCTGAAGACGC > minE/1474509‑1474638
|
| 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
