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 |
|
A5 F17 I0 R1
|
87 |
56.5 |
4283937 |
98.6% |
4223961 |
62.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,727,747 |
T→C |
11.9% |
V168V (GTT→GTC) |
pstA → |
phosphate transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,727,747 | 0 | T | C | 11.9%
| 151.0
/ 13.2
| 59 | V168V (GTT→GTC) | pstA | phosphate transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (25/27); new base C (4/3); total (29/30) |
| Fisher's exact test for biased strand distribution p-value = 7.06e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.30e-01 |
GCGCAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATGCGCTG > W3110S.gb/3727679‑3727813
|
gcgcAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGTAGGTGCCGATTGTTAt < 1:3867647/71‑1 (MQ=255)
cgcAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATc > 1:3806794/1‑71 (MQ=255)
cAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCg < 1:3052844/71‑1 (MQ=255)
cAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCg < 1:3057615/71‑1 (MQ=255)
aGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGc < 1:1931433/71‑1 (MQ=255)
tctcCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGaa > 1:973786/1‑70 (MQ=255)
ctcCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTAt > 1:91929/1‑54 (MQ=255)
ctcCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGaa < 1:293929/69‑1 (MQ=255)
ctcCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACa > 1:1631406/1‑71 (MQ=255)
cGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACa < 1:279218/68‑1 (MQ=255)
ggCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCt < 1:647610/71‑1 (MQ=255)
ggcgggcgTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGaaa < 1:2083268/70‑1 (MQ=255)
ggcgggcgTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAAc < 1:1389546/71‑1 (MQ=255)
ggcgggcgTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAAc > 1:936205/1‑71 (MQ=255)
ggcgggcgTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAAc > 1:711331/1‑71 (MQ=255)
cgggcgTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTg < 1:2281380/71‑1 (MQ=255)
gggcgTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCgaga > 1:1160328/1‑56 (MQ=255)
gcgTGATTGCCCTGGCGTTGTTTCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTg > 1:2653973/1‑71 (MQ=255)
tGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGcgg < 1:3234745/71‑3 (MQ=255)
gATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAAc < 1:3914083/62‑1 (MQ=255)
gATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCg > 1:2508558/1‑70 (MQ=255)
aTTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTa > 1:1115702/1‑71 (MQ=255)
aTTGCCCTGGCGTTGTTGCAGGTGCAGATTGTTATCCGCACCACCGAGAACATGCTGaaa > 1:819738/1‑60 (MQ=255)
ttGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTa > 1:3066019/1‑70 (MQ=255)
ttGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTa > 1:883792/1‑70 (MQ=255)
ttGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTAc < 1:3501634/71‑1 (MQ=255)
tGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTa > 1:644390/1‑69 (MQ=255)
tGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTa > 1:1140315/1‑69 (MQ=255)
tGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTa > 1:3460121/1‑69 (MQ=255)
gCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAg > 1:3150861/1‑71 (MQ=255)
tGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACa > 1:254143/1‑66 (MQ=255)
ggCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGc > 1:1898344/1‑71 (MQ=255)
gCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCg > 1:4078334/1‑71 (MQ=255)
gttgttGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTg < 1:3779080/71‑1 (MQ=255)
ttgttgCAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGa < 1:2393537/71‑1 (MQ=255)
tgttgCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGa < 1:25825/70‑1 (MQ=255)
ttgCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAg < 1:1224912/70‑1 (MQ=255)
tgCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGc > 1:3196921/1‑70 (MQ=255)
gCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCgg > 1:1412398/1‑71 (MQ=255)
gCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCg < 1:1962846/70‑1 (MQ=255)
cAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCgg < 1:3029995/70‑1 (MQ=255)
cAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCgg < 1:190916/70‑1 (MQ=255)
cAGGTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGc < 1:39268/71‑1 (MQ=255)
aGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCt < 1:1880379/71‑1 (MQ=255)
aGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCt < 1:1337209/71‑1 (MQ=255)
ggTGCCGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCtt < 1:693407/71‑1 (MQ=255)
gTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAAc < 1:1987461/40‑1 (MQ=255)
gTGCAGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTa > 1:2831743/1‑71 (MQ=255)
tGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTAt < 1:164663/71‑1 (MQ=255)
tGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTAt < 1:144433/71‑1 (MQ=255)
gCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAg > 1:2155815/1‑62 (MQ=255)
gCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTAt > 1:2859632/1‑70 (MQ=255)
ccGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATgc < 1:2703433/71‑1 (MQ=255)
ccGATTGTCATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATgc > 1:2605943/1‑71 (MQ=255)
gATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATgcgc < 1:2276508/71‑1 (MQ=255)
aTTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATGCGCt < 1:306056/71‑1 (MQ=255)
ttGTTATCCGCACCACCGAGAACATGATGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATGCGCTg > 1:3843965/1‑71 (MQ=255)
tGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGaa > 1:3100062/1‑55 (MQ=255)
tGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGc > 1:1122093/1‑57 (MQ=255)
|
GCGCAGATGGAGCACTTCTCCGGCTGGGCGGGCGTGATTGCCCTGGCGTTGTTGCAGGTGCCGATTGTTATCCGCACCACCGAGAACATGCTGAAACTGGTGCCGTACAGCCTGCGTGAAGCGGCTTATGCGCTG > W3110S.gb/3727679‑3727813
|
| 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
