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 |
|
A2 F3 I0 R1
|
328 |
90.1 |
2317887 |
85.2% |
1974839 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,697,000 |
T→C |
100% |
intergenic (+69/‑49) |
suhB → / → yfhR |
inositol monophosphatase/predicted peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,697,000 | 0 | T | C | 85.7%
| 46.2
/ 1.7
| 21 | intergenic (+69/‑49) | suhB/yfhR | inositol monophosphatase/predicted peptidase |
| Reads supporting (aligned to +/- strand): ref base T (3/0); new base C (18/0); total (21/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.72e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TATCACTCACCCGCCCTCGCCTTTCAGGCGCTATTCCGAAATACTTCCTCACTGCTTTACTTTCTTT > minE/1696948‑1697014
|
tatCACTCACCCGCCCTCGCCTTTCAGGCGCTATTCCGAAATACTTCCTCACTGCTTTActttcttt > 1:2315388/1‑67 (MQ=255)
tatCACTCACCCGCCCTCGCCTTTCAGGCGCTATTCCGAAATACTTCCTCACTGCTTTActttcttt > 1:1137045/1‑67 (MQ=255)
tatCACTCACCCGCCCTCGCCTTTCAGGCGCTATTCCGAAATACTTCCTCACTGCTTTActttcttt > 1:2082047/1‑67 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCttt > 1:2159895/1‑38 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:2053752/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:707820/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:671273/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:452919/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:418604/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:396285/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:27633/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:2314439/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:1954234/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:1855693/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:1814932/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:1807330/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:1692772/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:1663620/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:1512074/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:1191097/1‑39 (MQ=255)
cTTTCAGGCGCTATTCCGAAATACTTCCTCACCGCTTTa > 1:1190934/1‑39 (MQ=255)
|
TATCACTCACCCGCCCTCGCCTTTCAGGCGCTATTCCGAAATACTTCCTCACTGCTTTACTTTCTTT > minE/1696948‑1697014
|
| 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
