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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
286,496 |
T→C |
35.3% |
F162L (TTT→CTT) |
yagH → |
predicted xylosidase/arabinosidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 286,496 | 0 | T | C | 35.3%
| 9.7
/ 13.3
| 17 | F162L (TTT→CTT) | yagH | predicted xylosidase/arabinosidase |
| Reads supporting (aligned to +/- strand): ref base T (5/6); new base C (2/4); total (7/10) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.61e-01 |
TATCTACCGCCCGTGGGGGCCGCGCCACCACAGCAACCCGCACAACACCATCGTGTTACAGGCGTTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCAAAACGCTGTTTACCGGCACGCCGCTCTG > W3110S.gb/286432‑286560
|
tatCTACCGCCCGTGGGGGCCGCGCCACCACAGCAACCCGCACAACACCATCGTGTTACAGGCGTTTg < 1:1542479/68‑1 (MQ=255)
tatCTACCGCCCGTGGGGGCCGCGCCACCACAGCAACCCGCACAACACCATCGTGTTACAGGCGTTTg < 1:561117/68‑1 (MQ=255)
ccGCCCGTGGGGGCCGCGCCACCACAGCAACCCGCACAACACCATCGTGTTACAGGCGTTTGACCCGCAg < 1:1123009/70‑1 (MQ=255)
ccGCCCGTGGGGGCCGCGCCACCACAGCAACCCGCACAACACCATCGTGTTACAGGCGTTTGACCCGCAg < 1:1240147/70‑1 (MQ=255)
accacAGCAACCCGCACAACACCATCGTGTTACAGGCGCTTGACCCGCAg < 1:2114793/50‑1 (MQ=255)
accacAGCAACCCGCACAACACCATCGTGTTACAGGCGCTTGACCCGCAGACCGGCACGCTCTCGCCCGAg < 1:2044330/71‑1 (MQ=255)
accacAGCAACCCGCACAACACCATCGTGTTACAGGCGCTTGACCCGCAGACCGGCACGCTCTCGCCCGAg < 1:2047653/71‑1 (MQ=255)
cGCACAACACCATCGTGTTACAGGCGTTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCAAAACGCTg < 1:1444006/71‑1 (MQ=255)
cGCACAACACCATCGTGTTACAGGCGTTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCAAAACGCTg > 1:2571399/1‑71 (MQ=255)
cGCACAACACCATCGTGTTACAGGCGTTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCAAAACGCTg > 1:1969013/1‑71 (MQ=255)
cacaACACCATCGTGTTACAGGCGCTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCaaaa > 1:1642049/1‑64 (MQ=255)
acacCATCGTGTTACAGGCGCTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCAAAACGCTGTTTAc > 1:90609/1‑70 (MQ=255)
acCATCGTGTTACAGGCGCTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCAAAACGCTGTTTACCgg < 1:1736519/71‑1 (MQ=255)
gtgtTACAGGCGTTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCAAAACGCTGTTTACCGGCAcgc < 1:328442/70‑1 (MQ=255)
gtgtTACAGGCGTTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCAAAACGCTGTTTACCGGCAcgc > 1:1563833/1‑70 (MQ=255)
gtgtTACAGGCGTTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCAAAACGCTGTTTACCGGCAcgc > 1:818752/1‑70 (MQ=255)
cAGGCGTTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCAAAACGCTGTTTACCGGCACGCCGCTCTg > 1:1136723/1‑71 (MQ=255)
|
TATCTACCGCCCGTGGGGGCCGCGCCACCACAGCAACCCGCACAACACCATCGTGTTACAGGCGTTTGACCCGCAGACCGGCACGCTCTCGCCCGAGCGCAAAACGCTGTTTACCGGCACGCCGCTCTG > W3110S.gb/286432‑286560
|
| 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
