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 |
|
A1 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
342,943 |
T→C |
19.4% |
V279A (GTT→GCT) |
yahK → |
predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 342,943 | 0 | T | C | 19.4%
| 74.5
/ 13.8
| 36 | V279A (GTT→GCT) | yahK | predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base T (16/13); new base C (2/5); total (18/18) |
| Fisher's exact test for biased strand distribution p-value = 4.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCTTGCTGAAGCGTGATGGCACCATGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTGGCGGCATTCCAGAAACTCAGGA > W3110S.gb/342873‑343012
|
accTTGCTGAAGCGTGATGGCACCATGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGt < 1:3946772/71‑1 (MQ=255)
cTTGCTGAAGCGTGATGGCACCATGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGctt > 1:1121088/1‑71 (MQ=255)
tGCTGAAGCGTGATGGCACCATGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGtttt > 1:365708/1‑70 (MQ=255)
gCTGAAGCGTGATGGCACCATGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGCTTTc > 1:985682/1‑70 (MQ=255)
cTGAAGCGTGATGGCACCATGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGTTTTCa < 1:3531011/70‑1 (MQ=255)
aaGCGTGATGGCACCATGACGCTGGTTGCTGCGCCTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCt > 1:3308004/1‑71 (MQ=255)
gCGTGATGGCACCATGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGctt < 1:3580624/62‑1 (MQ=255)
gCGTGATGGCACCATGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGctt < 1:2317442/62‑1 (MQ=255)
ccATGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGc < 1:586793/71‑1 (MQ=255)
tGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCAt < 1:1326568/61‑1 (MQ=255)
tGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCAt > 1:2199978/1‑61 (MQ=255)
gACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTg > 1:143656/1‑71 (MQ=255)
aCGCTGGTTGGTGCGCCTGCGACACCGCATAAATAGCCGGAAGTTTTCAAc > 1:3019873/1‑51 (MQ=255)
aCGCTGGTTGGTGCGCCTGCGACACCGCATAAATAGCCGGAAGTTTTCAAc > 1:3014515/1‑51 (MQ=255)
tgttggtGCGCCTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAg > 1:4186916/2‑71 (MQ=255)
ggttggtGCGCCTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAg > 1:894977/1‑71 (MQ=255)
gttggtGCGCCTGCGACACCGCATAAATCGCAGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAg < 1:2004180/70‑1 (MQ=255)
tggtGCGCCTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCg > 1:173936/1‑71 (MQ=255)
ggtGCGCCTGCGACACCGCATAAATCGCCGGAAGCTTTCAACCTGAt < 1:584180/47‑1 (MQ=255)
tgcgactgcgacACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGtt < 1:3178398/71‑1 (MQ=255)
gcCTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTa < 1:4400769/71‑1 (MQ=255)
ccTGCGACACCGCATAAATCGCCGGAAGCTTTCAACCTGATCATGAAACGCCGTGCg < 1:695463/57‑1 (MQ=255)
ccTGCGACACCGCATAAATCGCCGGAAGCTTTCAACCTGATCATGAAACGCCGTGCg < 1:3194114/57‑1 (MQ=255)
cTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATg < 1:3128825/71‑1 (MQ=255)
cGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGaaa > 1:199525/1‑44 (MQ=255)
cGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGa < 1:2720658/69‑1 (MQ=255)
acacCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTAt < 1:2036307/65‑1 (MQ=255)
acCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGa > 1:3421686/1‑65 (MQ=255)
ccGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTggcgg < 1:3098683/71‑1 (MQ=255)
cGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGAtt > 1:941354/1‑65 (MQ=255)
cGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGAtt > 1:2308137/1‑65 (MQ=255)
cATAAATCGCCGGAAGTTTTCAACCTGATCATGaaa > 1:3395845/1‑36 (MQ=255)
tAAATCGCCGGAAGCTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTggcgg < 1:1601728/66‑1 (MQ=255)
aaTCGCCGGAAGCTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTa > 1:1695169/1‑54 (MQ=255)
aTCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTgg > 1:3070245/1‑60 (MQ=255)
tCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTGGCGGCATTCCAg > 1:1019191/1‑70 (MQ=255)
cGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTGGCGGCATTCCAGa > 1:4013294/1‑70 (MQ=255)
gCCGGAAGCTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTGGCGGCATTCCAGaa < 1:1917435/70‑1 (MQ=255)
ccGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTGGCGGCATTCCAGaaa < 1:2932979/70‑1 (MQ=255)
ggAAGTTTTCAACCTGATCTTGAAACGCCGTGCGATAGc < 1:4398377/39‑1 (MQ=255)
gTTTTCAACTTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTGGCGGCATTCCAGAAACTCAGga < 1:2291802/71‑1 (MQ=255)
ttttCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTggcgg < 1:3380759/52‑1 (MQ=255)
ttttCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTGGCGGCATTCCAGAAACTc < 1:3951531/66‑1 (MQ=255)
|
ACCTTGCTGAAGCGTGATGGCACCATGACGCTGGTTGGTGCGCCTGCGACACCGCATAAATCGCCGGAAGTTTTCAACCTGATCATGAAACGCCGTGCGATAGCCGGTTCTATGATTGGCGGCATTCCAGAAACTCAGGA > W3110S.gb/342873‑343012
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
