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 |
|
A6 F28 I3 R2
|
24 |
47.7 |
2431847 |
96.1% |
2337004 |
60.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
2,520,434 |
G→A |
W44* (TGG→TAG) |
ligB → |
DNA ligase, NAD(+)‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,520,434 | 0 | G | A | 98.3%
| 193.8
/ ‑3.9
| 60 | W44* (TGG→TAG) | ligB | DNA ligase, NAD(+)‑dependent |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (34/25); total (34/26) |
| Fisher's exact test for biased strand distribution p-value = 4.33e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
TCCGGCCTGGTCGCCAGCCAGAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTGGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTACGATCAGTTAAGCGC > minE/2520369‑2520500
|
tCCGGCCTGGTCGCCAGCCAGAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTagg < 1:1264625/68‑1 (MQ=255)
tCCGGCCTGGTCGCCAGCCAGAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGAc < 1:322581/70‑1 (MQ=255)
ccGGCCTGGTCGCCAGCCAGAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGa > 1:622422/1‑71 (MQ=255)
gCCTGGTCGCCAGCCAGAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGa > 1:1847919/1‑71 (MQ=255)
cTGGTCGCCAGCCAGAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGac > 1:795795/1‑70 (MQ=255)
gTCGCCAGCCAGAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGactact > 1:885458/1‑71 (MQ=255)
gTCGCCAGCCAGAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGactact > 1:1235886/1‑71 (MQ=255)
ccagccagAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTgg > 1:410139/1‑69 (MQ=255)
cagccagAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTggaag < 1:101218/71‑1 (MQ=255)
agccagAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTggaagg < 1:469906/71‑1 (MQ=255)
agccagAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTggaag > 1:252948/1‑70 (MQ=255)
gccagAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTggaagga < 1:133031/71‑1 (MQ=255)
ccagAGCAGAGGAAGAAATTTCCCGCCTGCAACAGCAAATTAAACAGTAGGACGAt < 1:754097/56‑1 (MQ=255)
agagCACAGGAAGAAATTTCCCGCCTGCAACCGCAAATAAAACAGTAGGACGATGACTACTggaaggaag > 1:1879795/1‑70 (MQ=255)
gagCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTggaaggaagg > 1:1102076/1‑70 (MQ=255)
agCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTggaaggaagga > 1:1234877/1‑70 (MQ=255)
agCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTggaaggaagga > 1:2313448/1‑70 (MQ=255)
cacaGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGaaa > 1:794305/1‑70 (MQ=255)
cacaGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGaaa > 1:1547632/1‑70 (MQ=255)
caGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGa > 1:996969/1‑50 (MQ=255)
caGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAg > 1:1656567/1‑71 (MQ=255)
aGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGaaa < 1:306404/67‑1 (MQ=255)
ggAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGaaa > 1:1854763/1‑66 (MQ=255)
ggAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTg < 1:376972/71‑1 (MQ=255)
aagaaATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAg < 1:1012380/71‑1 (MQ=255)
aagaaATTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAg < 1:1490611/71‑1 (MQ=255)
agaaATTTCCCGCCTGCAACAGCAAATAAAACAGTGGGACGATGACTACTGGAAGTAAGGAAAAAGTGAgg < 1:1539475/71‑1 (MQ=255)
aaTTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTgg < 1:1607/71‑1 (MQ=255)
aaTTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTg > 1:1387778/1‑70 (MQ=255)
aTTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGactac < 1:2208185/45‑1 (MQ=255)
aTTTCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTgg > 1:873439/1‑70 (MQ=255)
tttCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTgg < 1:1530434/69‑1 (MQ=255)
tttCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTgg < 1:484629/69‑1 (MQ=255)
ttCCCGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTgg > 1:1530094/1‑68 (MQ=255)
cccGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGa < 1:1608637/70‑1 (MQ=255)
cccGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGa < 1:584296/70‑1 (MQ=255)
cccGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGAc > 1:1193822/1‑71 (MQ=255)
ccGCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACg < 1:1258603/71‑1 (MQ=255)
gCCTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGgt > 1:2011744/1‑71 (MQ=255)
ccTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGgtg > 1:1133452/1‑71 (MQ=255)
ccTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGgtg > 1:1404394/1‑71 (MQ=255)
cTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGaaaaa > 1:1368736/1‑52 (MQ=255)
cTGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGgtgt > 1:1665582/1‑71 (MQ=255)
cTGCAACAGCAAATAAAACAGTAGGACGATGACAACTGGAAGGAAGGaaaa > 1:26616/1‑51 (MQ=255)
tGCAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGgtg > 1:402087/1‑69 (MQ=255)
cAACAGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGtt < 1:662954/69‑1 (MQ=255)
aGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGa < 1:1362362/58‑1 (MQ=255)
aGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGa < 1:1255418/58‑1 (MQ=255)
aGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTAc > 1:2337066/1‑68 (MQ=255)
aGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTACGAt > 1:1274576/1‑71 (MQ=255)
aGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTACGAt > 1:2005861/1‑71 (MQ=255)
aGCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTACGAt > 1:143953/1‑71 (MQ=255)
aGCAAAGAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTACGAt > 1:24/1‑71 (MQ=255)
gCAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTACGAt > 1:1555646/1‑70 (MQ=255)
cAAATAAAACAGTAGGACGATGACTACTGGAAGGAAGGaaa < 1:1127320/41‑1 (MQ=255)
aTAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTgg < 1:428758/49‑1 (MQ=255)
aTAAAACAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTACGATCAGtt < 1:1661627/71‑1 (MQ=255)
aaaaCAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGa < 1:1864265/42‑1 (MQ=255)
aCAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTACGATCAGTTAAgcg > 1:1719036/1‑71 (MQ=255)
cAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTACGATCAGTTAAgcgc < 1:2277404/71‑1 (MQ=255)
cAGTAGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTACGATCAGTTAAgcgc < 1:1864858/71‑1 (MQ=255)
|
TCCGGCCTGGTCGCCAGCCAGAGCACAGGAAGAAATTTCCCGCCTGCAACAGCAAATAAAACAGTGGGACGATGACTACTGGAAGGAAGGAAAAAGTGAGGTGGAAGACGGTGTTTACGATCAGTTAAGCGC > minE/2520369‑2520500
|
| 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
