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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,858,289 |
C→T |
48.6% |
S431S (TCG→TCA) |
cysI ← |
sulfite reductase, beta subunit, NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,858,289 | 0 | C | T | 48.6%
| ‑3.1
/ 29.9
| 37 | S431S (TCG→TCA) | cysI | sulfite reductase, beta subunit, NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base C (5/14); new base T (7/11); total (12/25) |
| Fisher's exact test for biased strand distribution p-value = 4.95e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGGCAGGAAACGCTCTGCTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGCATTCATTAACCCGCTCTCTTTGGCG > minE/1858226‑1858340
|
cGGCAGGAAACGCTCTGCTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGtt < 1:2164409/69‑1 (MQ=255)
cGGCAGGAAACGCTCTGCTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGtt < 1:663837/69‑1 (MQ=255)
ggAAACGCTCCGCTTCCGGCATCGCCAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCAc > 1:2182302/1‑69 (MQ=255)
ggAAACGCTCCGCTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCAc > 1:863203/1‑69 (MQ=255)
ggAAACGCTCCGCTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCAc > 1:271950/1‑69 (MQ=255)
ggAAACGCTCCGCTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCAc > 1:1880694/1‑69 (MQ=255)
ggAAACGCTCCGCTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCAc > 1:1804275/1‑69 (MQ=255)
ggAAACGCTCCGCTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCAc > 1:1794268/1‑69 (MQ=255)
ggAAACGCTCCGCTTACGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCAc > 1:2087980/1‑69 (MQ=255)
cTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGt < 1:1819649/67‑1 (MQ=255)
cTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGt < 1:2724104/67‑1 (MQ=255)
cTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGt < 1:1258867/67‑1 (MQ=255)
tCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGAc > 1:556367/1‑68 (MQ=255)
tCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGAc > 1:2126085/1‑68 (MQ=255)
tCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGAc > 1:584772/1‑68 (MQ=255)
tCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGAc > 1:253790/1‑68 (MQ=255)
aTCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGcattc < 1:3338301/69‑1 (MQ=255)
tCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGcattc < 1:2066682/68‑1 (MQ=255)
cAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCACGCTGCGGCGTGACGGCATTCCTTa < 1:1610000/68‑1 (MQ=255)
cAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCACGCTGCGGCGTGACGGCATTCATTa < 1:2997480/68‑1 (MQ=255)
cAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCACGCTGCGGCGTGACGGCATTCATTa < 1:448516/68‑1 (MQ=255)
cAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCACGCTGCGGCGTGACGGCATTCATTa < 1:2350290/68‑1 (MQ=255)
cAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCACGCTGCGGCGTGACGGCATTCATTa < 1:2223308/68‑1 (MQ=255)
cAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCACGCTGCGGCGTGACGGCATTCATTa < 1:2104003/68‑1 (MQ=255)
cAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCACGCTGCGGCGTGACGGCATTCATTa < 1:1540757/68‑1 (MQ=255)
cAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCACGCTGCGGCGTGACGGCATTCATTa < 1:781019/68‑1 (MQ=255)
cAGCGGGCAAGTCGGGAATGACACGCAGGCCATTGAGTTTTCACGCTGCGGCGTGACGGCATTCATTa < 1:1228562/68‑1 (MQ=255)
aaGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGCATTCATTAACCCGctct > 1:1145654/1‑69 (MQ=255)
aaTGACACGCAGGCCATTGAGTTTTCACGCTGCGGCGTGACGGCATTCATTa < 1:2130482/52‑1 (MQ=39)
aaTGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGCATTCATTAACCCGCTCTCTTTGGCg < 1:436609/69‑1 (MQ=255)
aaTGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGCATTCATTAACCCGCTCTCTTTGGCg < 1:362741/69‑1 (MQ=255)
aaTGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGCATTCATTAACCCGCTCTCTTTGGCg < 1:3075014/69‑1 (MQ=255)
aaTGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGCATTCATTAACCCGCTCTCTTTGGCg < 1:650841/69‑1 (MQ=255)
aaTGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGCATTCATTAACCCGCTCTCTTTGGCg < 1:1912655/69‑1 (MQ=255)
aaTGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGCATTCATTAACCCGCTCTCTTTGGCg < 1:1509064/69‑1 (MQ=255)
aaTGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGCATTCATTAACCCGCTCTCTTTGGCg < 1:1063068/69‑1 (MQ=255)
cATTGAGTTTTCACGCTGCGGCGTGACGGCATTCATTa < 1:93902/38‑1 (MQ=255)
|
CGGCAGGAAACGCTCTGCTTCCGCCATCGCCAGCGGGCAAGTCGGGAATGACACGCAAGCCATCGAGTTTTCACGCTGCGGCGTGACGGCATTCATTAACCCGCTCTCTTTGGCG > minE/1858226‑1858340
|
| 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
