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 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,824,288 |
G→A |
54.5% |
D452D (GAC→GAT) |
hypF ← |
carbamoyl phosphate phosphatase and maturation protein for [NiFe] hydrogenases |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,824,288 | 0 | G | A | 54.5%
| 20.8
/ 120.2
| 88 | D452D (GAC→GAT) | hypF | carbamoyl phosphate phosphatase and maturation protein for [NiFe] hydrogenases |
| Reads supporting (aligned to +/- strand): ref base G (27/13); new base A (18/30); total (45/43) |
| Fisher's exact test for biased strand distribution p-value = 5.94e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.40e-01 |
AGTACCGTTTGCGTCGGCAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACGCTTCG > minE/1824223‑1824348
|
aGTACCGTTTGCGTCGGCAGATTCATTTCACGCGCCCTCTGGCTGGAGACATAGCCCGGATGCGCATCATg < 1:939830/71‑1 (MQ=255)
aGTACCGTTTGCGTCGGCAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCATg < 1:1306062/71‑1 (MQ=255)
aGTACCGTTTGCGTCGGCAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCATg < 1:1352859/71‑1 (MQ=255)
ttGCGTCGGCAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGca > 1:2544455/1‑65 (MQ=255)
tGCGTCGGCAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTa > 1:1222878/1‑71 (MQ=255)
tGCGTCGGCAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTa > 1:1649974/1‑71 (MQ=255)
gCGTCGGCAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTa < 1:3291666/70‑1 (MQ=255)
tCGGCAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCTTGCACAAc < 1:654133/64‑1 (MQ=255)
ggCAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCgg > 1:2481099/1‑71 (MQ=255)
cAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCgggg > 1:743865/1‑71 (MQ=255)
cAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCACGGATGCGCATCATGCACAACGTAt > 1:2724064/1‑64 (MQ=255)
gATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGGACAACGTATTGCGGGGTa < 1:2595544/71‑1 (MQ=255)
aTTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGt < 1:3083935/69‑1 (MQ=255)
cATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTAt < 1:2112227/58‑1 (MQ=255)
aTTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATc < 1:2357117/71‑1 (MQ=255)
aTTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGAGGGGTAAAATc < 1:526034/71‑1 (MQ=255)
tttCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCa < 1:297810/44‑1 (MQ=255)
tttCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTg > 1:1024323/1‑58 (MQ=255)
tttCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTg > 1:764486/1‑58 (MQ=255)
tttCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTg > 1:1952831/1‑58 (MQ=255)
tttCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCATCATCCACAACGTATTg > 1:1194438/1‑58 (MQ=255)
tCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCg > 1:3145744/1‑69 (MQ=255)
aCGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCg > 1:509301/1‑67 (MQ=255)
aCGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCg > 1:851598/1‑67 (MQ=255)
aCGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTa < 1:2763131/69‑1 (MQ=255)
cgcCCACTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCg < 1:909990/64‑1 (MQ=255)
gcCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGtt > 1:343642/1‑71 (MQ=255)
cccACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGttt < 1:2408197/71‑1 (MQ=255)
ccACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGtttt > 1:2838259/1‑71 (MQ=255)
ccACTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGtttt < 1:939539/71‑1 (MQ=255)
ccACTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGtttt < 1:2916342/71‑1 (MQ=255)
aCTGGCTGGAGACATAGCCCGTATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTg > 1:3296548/1‑70 (MQ=255)
aCTGGCTGGAGACATAGCCCGGATGCGCGTCATGc < 1:538659/35‑1 (MQ=255)
aCTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTa > 1:2348441/1‑43 (MQ=255)
aCTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTg > 1:54973/1‑70 (MQ=255)
aCTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGtttt > 1:3624743/1‑69 (MQ=255)
aCTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGtttt > 1:1004317/1‑69 (MQ=255)
aCTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTg > 1:3031115/1‑70 (MQ=255)
aCTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTg > 1:550794/1‑70 (MQ=255)
aCTGGCTGGAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTg > 1:2161356/1‑70 (MQ=255)
ctggctggAGACATAGCCCGGATGCGCATCATGCACAACg < 1:2861382/40‑1 (MQ=255)
ctggctggAGACATAGCCCGGATGCGCATCATGCACAACg < 1:605682/40‑1 (MQ=255)
tggctggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGtttt < 1:407830/67‑1 (MQ=255)
ggctggAGACATAGCCCGGATGCGCGTCATGCACAAc > 1:2917736/1‑37 (MQ=255)
ggctggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGc > 1:30468/1‑44 (MQ=255)
ggctggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGtttt < 1:3653981/66‑1 (MQ=255)
ggctggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCAt > 1:1713364/1‑70 (MQ=255)
ggctggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCAt > 1:3130176/1‑70 (MQ=255)
ggctggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCAt > 1:837470/1‑70 (MQ=255)
gctggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGc > 1:2813750/1‑67 (MQ=255)
gctggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGc > 1:2396969/1‑67 (MQ=255)
gctggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGc > 1:3629819/1‑67 (MQ=255)
tggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGttt > 1:647456/1‑62 (MQ=255)
tggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGttt > 1:1240828/1‑62 (MQ=255)
tggAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGttt > 1:144015/1‑62 (MQ=255)
tggAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGt < 1:2339049/54‑1 (MQ=255)
tggAGACATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGt < 1:3284054/54‑1 (MQ=255)
gagaCATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCAt < 1:2630556/65‑1 (MQ=255)
gaCATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGt > 1:3599406/1‑70 (MQ=255)
gaCATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGt > 1:1570354/1‑70 (MQ=255)
cATAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAAc < 1:58240/71‑1 (MQ=255)
aTAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACg < 1:3472775/71‑1 (MQ=255)
aTAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACg < 1:3477221/71‑1 (MQ=255)
aTAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACg < 1:266633/71‑1 (MQ=255)
aTAGCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACg < 1:2544741/71‑1 (MQ=255)
tAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGAt < 1:2860058/50‑1 (MQ=255)
tAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGAt < 1:1175628/50‑1 (MQ=255)
tAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGAt < 1:2102799/50‑1 (MQ=255)
tAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGAt < 1:2436431/50‑1 (MQ=255)
tAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGAt < 1:3567778/50‑1 (MQ=255)
aGCCCGGAAGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGAt > 1:1862285/1‑49 (MQ=255)
gCCCGGATGGGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACGCtt > 1:1401666/1‑71 (MQ=255)
gCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCg > 1:1097726/1‑43 (MQ=255)
gCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCg > 1:305699/1‑43 (MQ=255)
gCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCg > 1:236269/1‑43 (MQ=255)
gCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACGCtt < 1:3083377/71‑1 (MQ=255)
gCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACGCtt < 1:2940334/71‑1 (MQ=255)
gCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACGCtt < 1:1854990/71‑1 (MQ=255)
gCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACGCtt > 1:2361926/1‑71 (MQ=255)
gCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACGCtt > 1:194431/1‑71 (MQ=255)
gCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACGCt < 1:1944942/70‑1 (MQ=255)
gCCCGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATAGTAGATGTTTTGCATCa > 1:3520061/1‑59 (MQ=39)
cccGGATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACGCTTc < 1:1115757/71‑1 (MQ=255)
gATGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAAc < 1:3291801/62‑1 (MQ=255)
aTGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACGCTTcg > 1:3310277/1‑67 (MQ=255)
tGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGt < 1:3119100/57‑1 (MQ=255)
tGCGCATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGt < 1:326810/57‑1 (MQ=255)
gcgcATCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGt < 1:2394053/56‑1 (MQ=255)
gcgTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTgt < 1:1605857/45‑2 (MQ=255)
gcgTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGc < 1:3605173/45‑1 (MQ=255)
gcgTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGc < 1:2048358/45‑1 (MQ=255)
|
AGTACCGTTTGCGTCGGCAGATTCATTTCACGCGCCCACTGGCTGGAGACATAGCCCGGATGCGCGTCATGCACAACGTATTGCGGGGTAAAATCGTAGATGTTTTGCATCAGGCGTAACGCTTCG > minE/1824223‑1824348
|
| 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
