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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,599,304 |
G→A |
100% |
M57I (ATG→ATA) |
bcp → |
thiol peroxidase, thioredoxin‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,599,304 | 0 | G | A | 81.8%
| 71.0
/ 11.6
| 33 | M57I (ATG→ATA) | bcp | thiol peroxidase, thioredoxin‑dependent |
| Reads supporting (aligned to +/- strand): ref base G (0/6); new base A (13/14); total (13/20) |
| Fisher's exact test for biased strand distribution p-value = 5.98e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.14e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TATTTCTACCCGAAAGCCATGACCCCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTC > W3110S.gb/2599239‑2599367
|
tATTTCTACCCGAAAGCCATGACCCCCGGCTGTACGGTACAGGCCTGCGGCTTACGCGATAACATAGAt < 1:3605286/69‑1 (MQ=255)
tttCTACCCGAAAGCCATGACCCCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATAGATg < 1:1373817/68‑1 (MQ=255)
tttCTACCCGAAAGCCATGACCCCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATAGATg < 1:1602099/68‑1 (MQ=255)
tttCTACCCGAAAGCCATGACCCCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATAGATg < 1:3154653/68‑1 (MQ=255)
tCTACCCGAAAGCCATGACCCCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATAGATGAg > 1:232196/1‑68 (MQ=255)
gAAAGCCATGACCCCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGaaaaa < 1:1960983/69‑1 (MQ=255)
gAAAGCCATGACCCCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGaaaaa < 1:1984604/69‑1 (MQ=255)
gAAAGCCATGACCCCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGaaaaa < 1:1999461/69‑1 (MQ=255)
aCCCCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGAAAAAAGCGGGCGtt > 1:121031/1‑69 (MQ=255)
aCCCCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGAAAAAAGCGGGCGtt < 1:579078/69‑1 (MQ=255)
ccccGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGAAAAAAGCggg < 1:708170/63‑1 (MQ=255)
tGTACCGTACAGGCCTGCGGCTTACGCGATAACATg < 1:3656038/36‑1 (MQ=255)
ccGTACAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGt < 1:3584104/68‑1 (MQ=255)
ccGTACAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGt > 1:483274/1‑68 (MQ=255)
ccGTACAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGAAAAAAGCAGGCGTTGATGTGCTGGGt > 1:2193474/1‑68 (MQ=255)
cGTACAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGAAAAAAGCGGGCGTTg < 1:732430/56‑1 (MQ=255)
tACAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATc > 1:2463961/1‑68 (MQ=255)
cAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCggg < 1:698592/47‑1 (MQ=255)
cAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCggg < 1:1339997/47‑1 (MQ=255)
cAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGtt < 1:54479/51‑1 (MQ=255)
cAGGCCTGCGGCTTACGCGATAACATAGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGc > 1:3575980/1‑69 (MQ=255)
cAGGCCT‑CGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCggg < 1:2890762/46‑1 (MQ=255)
gCCTGCGGCTTACGCGATAACATAGATGAGTTGaaa > 1:879055/1‑36 (MQ=255)
gCCTGCGGCTTACGCGATAACATAGATGAGTTGaaa > 1:894274/1‑36 (MQ=255)
gCCTGCGGCTTACGCGATAACATAGATGAGTTGaaa > 1:3433315/1‑36 (MQ=255)
gCCTGCGGCTTACGCGATAACATAGATGAGTTGaaa > 1:1946027/1‑36 (MQ=255)
tGCGGCTTACGCGATAACATAGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGAt < 1:1747324/69‑1 (MQ=255)
ttACGCGATAACATAGATGAGTTGAAAAAAGCGGGCGtt < 1:2866010/39‑1 (MQ=255)
cgcgATAACATGGATGAGTTGAACAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGa < 1:1487146/59‑1 (MQ=255)
cgcgATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGa < 1:2711484/59‑1 (MQ=255)
cgcgATAACATAGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGa > 1:2112459/1‑68 (MQ=255)
cgATAACATAGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGaaa < 1:3124498/68‑1 (MQ=255)
aaCATAGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAActc > 1:2454091/1‑69 (MQ=255)
aCATAGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTAt > 1:23883/1‑43 (MQ=255)
|
TATTTCTACCCGAAAGCCATGACCCCCGGCTGTACCGTACAGGCCTGCGGCTTACGCGATAACATGGATGAGTTGAAAAAAGCGGGCGTTGATGTGCTGGGTATCAGCACCGATAAACCCGAAAAACTC > W3110S.gb/2599239‑2599367
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
