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 |
395,924 |
T→A |
57.0% |
V425V (GTT→GTA) |
ahpF → |
alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 395,924 | 0 | T | A | 57.0%
| 26.7
/ 74.7
| 72 | V425V (GTT→GTA) | ahpF | alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base T (23/8); new base A (24/17); total (47/25) |
| Fisher's exact test for biased strand distribution p-value = 2.14e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACGTCGACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTCACAACATCGAACTGGCCGGTATTTTCG > minE/395863‑395988
|
aCGTCGACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTgg < 1:1216574/69‑1 (MQ=255)
aCGTCGACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTgg < 1:292407/69‑1 (MQ=255)
aCGTCGACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTgg < 1:34085/69‑1 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:1765000/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:2459522/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:1787063/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:2158087/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:2329571/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:263725/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:3136478/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:3252835/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:391265/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:5333/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:587102/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:66765/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:883279/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:981766/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:157335/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:1411579/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:1354717/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:1138839/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:1331847/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAatat > 1:1525377/1‑69 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAata > 1:1611394/1‑68 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAata > 1:974442/1‑68 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGCAAAGTCGTAGGTCTGGAata > 1:3418258/1‑68 (MQ=255)
gACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGTAGAAAAGTCGTAGGTCTGGAata > 1:2933372/1‑68 (MQ=255)
attattCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAata > 1:502304/1‑65 (MQ=255)
attCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGAt > 1:2213818/1‑69 (MQ=255)
attCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGAt > 1:1413265/1‑69 (MQ=255)
attCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGAt > 1:3431500/1‑69 (MQ=255)
attCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGAt > 1:2396844/1‑69 (MQ=255)
attCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGAt > 1:1882467/1‑69 (MQ=255)
attCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGAt > 1:1548073/1‑69 (MQ=255)
attCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGAt > 1:3061261/1‑69 (MQ=255)
cTGAATGCGCAAACCACGGAAGTTAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCgt > 1:2774064/1‑69 (MQ=255)
cgcAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAgcg > 1:2300311/1‑69 (MQ=255)
cgcAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAgcg > 1:5787/1‑69 (MQ=255)
cgcAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAgcg > 1:3135382/1‑69 (MQ=255)
cgcAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAgcg > 1:1431552/1‑69 (MQ=255)
cgcAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAgcg > 1:298342/1‑69 (MQ=255)
cgcAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAgc > 1:813544/1‑68 (MQ=255)
cgcAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTAAgcg > 1:3389951/1‑69 (MQ=255)
aaaGGCGACGGCAGCAAAGTCGTTGGTCTGGATTATCGAGATCGTGTCAGCGGCGATATTcac < 1:2133979/63‑1 (MQ=255)
aaaGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTcac < 1:1062452/63‑1 (MQ=255)
aaaGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTcac < 1:2634941/63‑1 (MQ=255)
aaaGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATAGTGTCAGCGGCGATATTCA‑AACATCg > 1:508857/1‑69 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATct < 1:287758/68‑2 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:1493446/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:1758742/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:1873356/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:1103461/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:2075539/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:1110828/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:2130336/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:2180873/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:2295345/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:353815/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:2406819/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:3340196/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:3311259/68‑1 (MQ=255)
aGGCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:260662/68‑1 (MQ=255)
aGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTCACAACATCg < 1:1319405/68‑1 (MQ=255)
ggCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:2310670/67‑1 (MQ=255)
ggCGACGGTAGCAAAGTCGTAGGTCTGGAATATCGCGATCGTGTCAGCGGCAATATTCACAACATCg < 1:2688288/67‑1 (MQ=255)
agcaAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTCACAACATCGAACTGGCCGGt > 1:3265869/1‑69 (MQ=255)
agcaAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTCACAACATCGAACTGGCCGGt < 1:3044397/69‑1 (MQ=255)
aaaGTCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTCACAACATCGAACTGGCCGGTAtt > 1:2168177/1‑69 (MQ=255)
aaaGTCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTCACAACATCGAACTCGCCGGTa > 1:338217/1‑67 (MQ=255)
tCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTCACAACATCGAACTGGCCGGTATTTTCg > 1:1039387/1‑69 (MQ=255)
tCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTCACAACATCGAACTGGCCGGTATTTTCg > 1:1398758/1‑69 (MQ=255)
tCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTCACAACATCGAACTGGCCGGTATTTTCg > 1:3243855/1‑69 (MQ=255)
|
ACGTCGACATTATTCTGAATGCGCAAACCACGGAAGTGAAAGGCGACGGCAGCAAAGTCGTTGGTCTGGAATATCGAGATCGTGTCAGCGGCGATATTCACAACATCGAACTGGCCGGTATTTTCG > minE/395863‑395988
|
| 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
