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 |
1,988,030 |
C→G |
65.7% |
G196G (GGG→GGC) |
yggN ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,988,030 | 0 | C | G | 65.7%
| 30.3
/ 23.6
| 35 | G196G (GGG→GGC) | yggN | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (6/6); new base G (12/11); total (18/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGC > minE/1987966‑1988078
|
tGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCa > 1:3389359/1‑69 (MQ=255)
ccAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCa < 1:708541/67‑1 (MQ=255)
ccAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCa < 1:603638/67‑1 (MQ=255)
ccAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCa < 1:2886503/67‑1 (MQ=255)
ccAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCa < 1:2843180/67‑1 (MQ=255)
ccAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCa < 1:2564967/67‑1 (MQ=255)
ccAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCa < 1:2191520/67‑1 (MQ=255)
ccAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCa < 1:809466/67‑1 (MQ=255)
ccAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCa < 1:2994024/67‑1 (MQ=255)
ccAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCa < 1:3015982/67‑1 (MQ=255)
cAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCa < 1:2325624/66‑1 (MQ=255)
aaaCTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCa < 1:2425083/65‑1 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAg > 1:344852/1‑68 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAGc > 1:344048/1‑69 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAGc > 1:3046796/1‑69 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAGc > 1:3386884/1‑69 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAGc > 1:515411/1‑69 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAGc > 1:2897481/1‑69 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAGc > 1:956486/1‑69 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAGc > 1:1345836/1‑69 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAGc > 1:1288411/1‑69 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAGc > 1:1284245/1‑69 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAGc > 1:1198952/1‑69 (MQ=255)
tgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGGCCGCCCAGGCTTCCCAGc > 1:1044333/1‑69 (MQ=255)
tCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCa > 1:3056880/1‑52 (MQ=255)
tCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCAGGCTTCCCAGCACATTc > 1:485668/1‑69 (MQ=255)
tCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCAGGCTTCCCAGCACATTc > 1:1171556/1‑69 (MQ=255)
cTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCAGGCTTCCCAGCACATTc > 1:3307528/1‑68 (MQ=255)
tCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCAGGCTTCCCAGCACATTCTGt < 1:3096975/66‑1 (MQ=255)
tCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCAGGCTTCCCAGCACATTCTGt < 1:2921472/66‑1 (MQ=255)
tCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCAGGCTTCCCAGCACATTCTGt < 1:590867/66‑1 (MQ=255)
tCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCAGGCTTCCCAGCACATTCTGt < 1:1550748/66‑1 (MQ=255)
tCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCACCAGGCTTCCCAGCACATTCTGt < 1:1497147/66‑1 (MQ=255)
ccTGCTTTTTCCACTCGGTTTGGTTTGAGGATTGCAGCCCCCCCAGGCTTCCCAGCACATTCTGt < 1:2887876/65‑1 (MQ=255)
tGGATTGAGGATTGCAGCCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGc > 1:1357932/1‑69 (MQ=255)
|
TGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGC > minE/1987966‑1988078
|
| 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
