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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,215,186 |
A→G |
25.0% |
V115V (GTT→GTC) |
yehS ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,215,186 | 0 | A | G | 25.0%
| 56.6
/ 20.9
| 36 | V115V (GTT→GTC) | yehS | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (7/20); new base G (4/5); total (11/25) |
| Fisher's exact test for biased strand distribution p-value = 4.09e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.29e-01 |
ATTGATCGCCGCATTCGCGGAAGTTTTTATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGTTTTCAGCGAAAACGCGATGCGTA > W3110S.gb/2215116‑2215253
|
aTTGATCGCCGCATTCGCGGAAGTTTTTATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGaa < 1:3336084/71‑1 (MQ=255)
gccgcATTCGCGGAAGTTTTTATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAGACGCgg < 1:1963998/70‑1 (MQ=255)
cgcgGAAGTTTTTATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAGACGCGGAActgctg > 1:511663/1‑70 (MQ=255)
cgcgGAAGTTTTTATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAGACGCGGAACTGCTGt > 1:1605915/1‑71 (MQ=255)
cgcgGAAGTTTTTATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAGACGCGGAACTGCTGt > 1:1851109/1‑71 (MQ=255)
cgcgGAAGTTTTTATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAAAcgc > 1:1692011/1‑60 (MQ=255)
tttttATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAGACGCGGAACTGCTGTTCGGTGAg < 1:431903/71‑1 (MQ=255)
tttttATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAGACGCGGAACTGCTGTTCGGTGAg < 1:4041952/71‑1 (MQ=255)
tttttATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAg < 1:776539/71‑1 (MQ=255)
tttttATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAg < 1:519970/71‑1 (MQ=255)
tttttATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAg < 1:3667955/71‑1 (MQ=255)
ttttATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAg > 1:2947040/1‑70 (MQ=255)
ttttATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAg > 1:2494195/1‑70 (MQ=255)
aTGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATa < 1:2244503/70‑1 (MQ=255)
tCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAGACGCGGAACTGCTGTTCGGTGAGGATAGCCAg < 1:1178010/71‑1 (MQ=255)
tCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAGACGCGGAACTGCTGTTCGGTGAGGATAGCCAg < 1:2981578/71‑1 (MQ=255)
tCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAg < 1:4026014/71‑1 (MQ=255)
ggTGCGCGCATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAAt < 1:2756075/71‑1 (MQ=255)
tGCGCGCATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAg < 1:2752471/66‑1 (MQ=255)
gcgcgcATCATCGCTGTAATTTCCGGCATCGAGACGCGGAACTGCTGTTCGATGAGGATAGCCAGAATGt > 1:1895770/1‑70 (MQ=255)
gcgcgcATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAg < 1:3757759/65‑1 (MQ=255)
cgcATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATc > 1:580308/1‑71 (MQ=255)
tcatcGCTGTAATTTCCGGCATCGAAACGCTGAACTGCTGTTCGGt < 1:2004220/46‑1 (MQ=255)
tcatcGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGt < 1:1287660/46‑1 (MQ=255)
tcatcGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGt < 1:3743225/46‑1 (MQ=255)
tcatcGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGtt < 1:165023/71‑1 (MQ=255)
atcGCTGTAATTTCCGGCATCGAAACGCGGAACTGTTGTTCGGTGAg > 1:2274174/1‑47 (MQ=255)
atcGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGtttt > 1:3036339/1‑71 (MQ=255)
tAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAg < 1:2645454/40‑1 (MQ=255)
tAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGTTTTCAGCg > 1:1073041/1‑69 (MQ=255)
ttCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAg < 1:3753166/45‑1 (MQ=255)
ccGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGTTTTCAGCGAAAAcgc < 1:3385542/70‑1 (MQ=255)
ccGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGTTTTCAGCGAAAAcgc < 1:643379/70‑1 (MQ=255)
ccGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGTTTTCAGCGAAAAcgc < 1:914569/70‑1 (MQ=255)
cGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGTTTTCAGCGAAAAcgcg < 1:1772735/64‑1 (MQ=255)
cGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGTTTTCAGCGAAAAcgcg < 1:207032/64‑1 (MQ=255)
gAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGTTTTCAGCGAAAACGCGATGCGTa < 1:1680317/70‑1 (MQ=255)
aaaCGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGTTTTCAGCGAAAACGCGATGCGTa < 1:3986476/69‑1 (MQ=255)
|
ATTGATCGCCGCATTCGCGGAAGTTTTTATGATCCGGTGCGCGCATCATCGCTGTAATTTCCGGCATCGAAACGCGGAACTGCTGTTCGGTGAGGATAGCCAGAATGTCATCGGTTTTCAGCGAAAACGCGATGCGTA > W3110S.gb/2215116‑2215253
|
| 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
