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 |
1,862,621 |
T→G |
53.9% |
A161A (GCT→GCG) |
ygcN → |
predicted oxidoreductase, FAD/NAD(P)‑binding domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,862,621 | 0 | T | G | 53.9%
| 13.2
/ 50.2
| 52 | A161A (GCT→GCG) | ygcN | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| Reads supporting (aligned to +/- strand): ref base T (6/18); new base G (11/17); total (17/35) |
| Fisher's exact test for biased strand distribution p-value = 3.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.16e-01 |
TTGTGGTGACGATATTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCGTTGGGGATCA > minE/1862555‑1862676
|
ttGTGGTGACGATATTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTg < 1:3275421/68‑1 (MQ=255)
ttGTGGTGACGATATTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTg < 1:233863/68‑1 (MQ=255)
gACGATATTCTTCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCGGAACGCCAc > 1:3180566/1‑69 (MQ=255)
gACGATATTCTTCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCGGAACGCCAc > 1:1130323/1‑69 (MQ=255)
gACGATATTCTTCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCGGAACGCCAc > 1:411797/1‑69 (MQ=255)
gACGATATTCTTCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCGGAACGCCAc > 1:2025698/1‑69 (MQ=255)
gACGATATTCTTCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCGGAACGCCAc > 1:34689/1‑69 (MQ=255)
gACGATATTCTTCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCGGAACGCCAc > 1:1851630/1‑69 (MQ=255)
gACGATATTCTTCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCGGAACGCCAc > 1:2832311/1‑69 (MQ=255)
gACGATATTCTTCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCGGAACGCCAc > 1:47596/1‑69 (MQ=255)
gACGATATTCTTCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCGGAACGCCAc > 1:518745/1‑69 (MQ=255)
gACGATATTCTTCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCGGAACGCCAc > 1:300835/1‑69 (MQ=255)
gACGATATTCTTCGCGCCCGTTATGTGGTGCTGGCAGAAGGTCCCAACAGCGTCCTGGCGGAACGCCAc > 1:3306068/1‑69 (MQ=255)
aCGATATTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCAc > 1:2020098/1‑68 (MQ=255)
aCGATATTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACg > 1:1260418/1‑69 (MQ=255)
tatTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTTCCAACAGCGTCCTGGCTGAACGTCACGGGtt < 1:2251109/69‑1 (MQ=255)
tatTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGtt < 1:3185280/69‑1 (MQ=255)
tatTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGtt < 1:3308624/69‑1 (MQ=255)
tatTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGtt < 1:3227736/69‑1 (MQ=255)
tatTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGtt < 1:202399/69‑1 (MQ=255)
tatTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGtt < 1:422081/69‑1 (MQ=255)
tatTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGtt < 1:668484/69‑1 (MQ=255)
tatTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGtt < 1:890137/69‑1 (MQ=255)
aTGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCctgctg > 1:3038520/1‑69 (MQ=255)
gCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGc < 1:2161446/69‑1 (MQ=255)
gCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGc < 1:1938974/69‑1 (MQ=255)
gCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGc < 1:1828195/69‑1 (MQ=255)
gCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGc < 1:2859072/69‑1 (MQ=255)
gCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGc < 1:2929580/69‑1 (MQ=255)
gCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGc < 1:3212437/69‑1 (MQ=255)
gCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGc < 1:1126123/69‑1 (MQ=255)
ggTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGaa > 1:1709442/1‑57 (MQ=255)
ggTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCGTTg > 1:943649/1‑69 (MQ=255)
ggTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCGTTg > 1:2462037/1‑69 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGTATCa < 1:2622979/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:1267467/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:318690/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:1345056/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:78140/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:1560701/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:1687294/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:518251/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:490025/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:1702242/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:1784578/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:2485553/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:2685995/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:328103/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:2717702/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:291265/69‑1 (MQ=255)
aCAGCGTCCTGGCGGAACGCCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCATTGGGGATCa < 1:3001737/69‑1 (MQ=255)
gTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGc < 1:392250/47‑1 (MQ=255)
|
TTGTGGTGACGATATTCTCCGCGCCCGTTATGTGGTGCTGGCAGAAGGTGCCAACAGCGTCCTGGCTGAACGTCACGGGTTAGTGACTCGTCCTGCTGGCGAAGCGATGGCGTTGGGGATCA > minE/1862555‑1862676
|
| 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
