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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,497,165 |
G→A |
40.4% |
A65T (GCG→ACG) |
fsaB → |
fructose‑6‑phosphate aldolase 2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,497,165 | 0 | G | A | 40.4%
| 37.9
/ 57.5
| 52 | A65T (GCG→ACG) | fsaB | fructose‑6‑phosphate aldolase 2 |
| Reads supporting (aligned to +/- strand): ref base G (14/17); new base A (13/8); total (27/25) |
| Fisher's exact test for biased strand distribution p-value = 2.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCTGCCGCGTCTGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGGAAGAAGCGAAGCGCCTGCGCGACGCTATTCCGGGTATTGTGGTGAA > W3110S.gb/3497097‑3497226
|
tgctgcCGCGTCTGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGAcgcg < 1:647494/71‑1 (MQ=255)
gctgcCGCGTCTGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGAcgcg > 1:1831749/1‑70 (MQ=255)
gctgcCGCGTCTGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGAcgcg > 1:4660771/1‑70 (MQ=255)
ctgcCGCGTCTGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGAcacg > 1:410894/1‑69 (MQ=255)
ctgcCGCGTCTGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGAcacg > 1:2386445/1‑69 (MQ=255)
ctgcCGCGTCTGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACacgc < 1:3267600/70‑1 (MQ=255)
ccGCGTCTGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAggg < 1:2958770/71‑1 (MQ=255)
ccGCGTCTGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAggg > 1:4401581/1‑71 (MQ=255)
tCTGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACgcgc < 1:4539237/62‑1 (MQ=255)
tGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGAtggtg > 1:1371395/1‑71 (MQ=255)
tGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGAtggtg > 1:690578/1‑71 (MQ=255)
tGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTAAGACCATGAGCCGCGACGCGCAGGGGAtggtg > 1:1459228/1‑71 (MQ=255)
aaaaaGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGa < 1:4532350/63‑1 (MQ=255)
aaaaaGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGa < 1:4185235/63‑1 (MQ=255)
aaaGCGATTGGTGATGAGGGCATTCTGTTTTCTCAGACCATGAGCCGCGACACGCAggg > 1:4525795/1‑59 (MQ=255)
aaaGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGgaaga < 1:4331348/71‑1 (MQ=255)
aaaGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGgaaga < 1:2653577/71‑1 (MQ=255)
aaGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGgaagaa < 1:3746465/71‑1 (MQ=255)
aaGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGgaagaa < 1:3668700/71‑1 (MQ=255)
gCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGGaagaag < 1:4466940/70‑1 (MQ=255)
gCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACACGCAg > 1:2905283/1‑54 (MQ=255)
gCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACACGCAg > 1:1595086/1‑54 (MQ=255)
aTTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGGAAgaagcg < 1:1447993/69‑1 (MQ=255)
aTTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGGAAgaagcg < 1:3715493/69‑1 (MQ=255)
aTTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACACGCAGGGGATGGTGGAAgaagcgaa < 1:1470337/71‑1 (MQ=255)
aTTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACACGCAGGGGATGGTGGAAgaagcg < 1:1907774/69‑1 (MQ=255)
ttGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGGAAgaagcg < 1:4830904/68‑1 (MQ=255)
ggTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGAtgg > 1:2706960/1‑55 (MQ=255)
gTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGGAAGAAGCGAAgcgc > 1:2182763/1‑71 (MQ=255)
atgaGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGgaagaa < 1:3474548/59‑1 (MQ=255)
atgaGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACACGCAGGGGAt < 1:317126/49‑1 (MQ=255)
atgaGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACACGCAGGGGAt < 1:1012087/49‑1 (MQ=255)
tgaGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGa < 1:979936/47‑1 (MQ=255)
gaGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAgggg > 1:3396288/1‑45 (MQ=255)
ggCATTCTGTTTGCTCAGACCATGAGCCGCGACACGCAGGGGATGGTGGAAGAAGCGAAGCGCCTGCGCGa < 1:3345035/71‑1 (MQ=255)
tCTGTTTGCTCAGACCATGAGCCGCGACACGCAGGGGATGGTGGAAgaagc < 1:2711678/51‑1 (MQ=255)
tCTGTTTGCTCAGACCATGAGCCGCGACACGCAGGGGATGGTGGAAGAAGCGAAGCGCCTGCGCGACGCTa > 1:3586395/1‑71 (MQ=255)
cTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGAtggt > 1:2948846/1‑41 (MQ=255)
cTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGGAAGAAGCGAAGCGCCTGCGCGACGCTAt > 1:3333851/1‑71 (MQ=255)
cTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGGAAGAAGCGAAGCGCCTGCGCGACGCTAt > 1:4696410/1‑71 (MQ=255)
tGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGGAAGaagcgaagcg > 1:1823145/1‑55 (MQ=255)
tttGCTCAGACCATGAGCCGCGACACGCAGGGGATGGTGGAAGAAGCGAAGCGcc < 1:928884/55‑1 (MQ=255)
tGCTCAGACCATGAGCCGCGACGCGCAGGGGAtgg > 1:2227282/1‑35 (MQ=255)
tGCTCAGACCATGAGCCGCGACACGCAGGGGATGGTGgaagaa > 1:3583167/1‑43 (MQ=255)
cTCAGACCATGAGCCGCGACACGCAGGGGATGGTGgaa > 1:4509795/1‑38 (MQ=255)
cTCAGACCATGAGCCGCGACACGCAGGGGATGGTGgaa > 1:902019/1‑38 (MQ=255)
cTCAGACCATGAGCCGCGACACGCAGGGGATGGTGgaa > 1:680732/1‑38 (MQ=255)
cTCAGACCATGAGCCGCGACACGCAGGGGATGGTGgaa > 1:3136749/1‑38 (MQ=255)
cTCAGACCATGAGCCGCGACACGCAGGGGATGGTGgaa > 1:3170008/1‑38 (MQ=255)
tCAGACCATGAGCCGCGACACGCAGGGGATGGTGGAAgaagcga < 1:4190563/44‑1 (MQ=255)
aGACCATGAGCCGCGACGCGCAGTGGATGGTGGAAGAAGCGAAGCGCCTGCGCGACGCTATTCCGGGTAtt < 1:2967375/71‑1 (MQ=255)
aGACCATGAGCCGCGACGCGCAGGGGATGGTGGAAGAAGCGAAGCGCCTGCGCGACGCTATTCCGGGt > 1:4375196/1‑68 (MQ=255)
gACCATGAGCCGCGACGCGCAGGGGATGGTGGAAGAAGCGAAGCGCCTGCGCGACGCTATTCCGGGTATtg < 1:2205474/71‑1 (MQ=255)
ccATGAGCCGCGACGCGCAGGGGATGGTGGAAGAAGCGAAGCGCCTGCGCGACGCTATTCCGGGTATtgt < 1:3826693/70‑1 (MQ=255)
cATGAGCCGCGACACGCAGGGGATGGTGGAAGAAGCGAAGCGCCTGCGCGa > 1:3231205/1‑51 (MQ=255)
tGAGCCGCGACACGCAGGGGATGGTGGAAgaagcga > 1:3729208/1‑36 (MQ=255)
tGAGCCGCGACACGCAGGGGATGGTGGAAgaagcga > 1:1708531/1‑36 (MQ=255)
aGCCGCGACGCGCAGGGGATGGTGGAAgaagcgaag > 1:212747/1‑36 (MQ=255)
gCCGCGACGCGCAGGGGATGGTGGAAGAAGCGAAGCGCCTGCGCGACGCTATTCCGGGTATTGTGGTGaa < 1:3164973/70‑1 (MQ=255)
|
TGCTGCCGCGTCTGCAAAAAGCGATTGGTGATGAGGGCATTCTGTTTGCTCAGACCATGAGCCGCGACGCGCAGGGGATGGTGGAAGAAGCGAAGCGCCTGCGCGACGCTATTCCGGGTATTGTGGTGAA > W3110S.gb/3497097‑3497226
|
| 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
