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 |
2,829,222 |
A→G |
31.0% |
V256V (GTT→GTC) |
aspA ← |
aspartate ammonia‑lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,829,222 | 0 | A | G | 31.0%
| 36.4
/ 19.4
| 45 | V256V (GTT→GTC) | aspA | aspartate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base A (8/23); new base G (8/6); total (16/29) |
| Fisher's exact test for biased strand distribution p-value = 5.30e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TAACATAAGCGCCGCAGTCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGACCAGTACCGATTGC > minE/2829155‑2829290
|
taacataaGCGCCGCAGTCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTaa > 1:318196/1‑69 (MQ=255)
taacataaGCGCCGCAGTCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTaa > 1:13/1‑69 (MQ=255)
taacataaGCGCCGCAGTCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTaa > 1:707573/1‑69 (MQ=255)
taacataaGCGCCGCAGTCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTaa > 1:1710500/1‑69 (MQ=255)
gTCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGtttttt < 1:1979563/69‑1 (MQ=255)
gTCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGtttttt < 1:1207608/69‑1 (MQ=255)
gTCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGtttttt < 1:2450402/69‑1 (MQ=255)
gTCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGtttttt < 1:1738069/69‑1 (MQ=255)
gTCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGtttttt < 1:1711864/69‑1 (MQ=255)
tCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGtttttt < 1:1385825/68‑1 (MQ=255)
cacTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAg > 1:2819218/3‑69 (MQ=255)
cGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAg > 1:1396266/1‑69 (MQ=255)
tCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTGACTTCAGCCAGTTTTTTCACTGCCAGCg > 1:382526/1‑67 (MQ=255)
tCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTGACTTCAGCCAGTTTTTTCACTGCCAGCg > 1:214277/1‑67 (MQ=255)
tCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTGACTTCAGCCAGTTTTTTCACTGCCAGCg > 1:380147/1‑67 (MQ=255)
tCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTGACTTCAGCCAGTTTTTTCACTGCCAGCg > 1:482710/1‑67 (MQ=255)
tCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTGACTTCAGCCAGTTTTTTCACTGCCAGCg > 1:3211678/1‑67 (MQ=255)
tCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTGACTTCAGCCAGTTTTTTCACTGCCAGCg > 1:912114/1‑67 (MQ=255)
tCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTGACTTCAGCCAGTTTTTTCACTGCCAGCg > 1:732353/1‑67 (MQ=255)
tCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTGACTTCAGCCAGTTTTTTCACTGCCAGCg > 1:166603/1‑67 (MQ=255)
aTCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGgag < 1:2402126/67‑1 (MQ=255)
aTCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGgag < 1:2289120/67‑1 (MQ=255)
tCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGagag < 1:2257128/68‑1 (MQ=255)
tCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGagag < 1:224542/68‑1 (MQ=255)
tCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGagag < 1:364250/68‑1 (MQ=255)
cAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTa < 1:1964735/69‑1 (MQ=255)
cAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTa < 1:76039/69‑1 (MQ=255)
cAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTa < 1:3293070/69‑1 (MQ=255)
cAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGCTTTTTCACTGCCAGCGGagag < 1:2543772/67‑1 (MQ=255)
cAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGtttttt < 1:1714992/43‑1 (MQ=255)
aCGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCgtg < 1:1483949/66‑1 (MQ=255)
aCGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCgtg < 1:334558/66‑1 (MQ=255)
aCGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCgtg < 1:2797381/66‑1 (MQ=255)
aCGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCgtg < 1:1195114/66‑1 (MQ=255)
cGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCgtg < 1:309883/65‑1 (MQ=255)
tGGGAAGCCAGTAACTTCAGCCAGTTTTTTCATTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGAcc < 1:1181656/69‑1 (MQ=255)
ggAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGga > 1:2847416/1‑41 (MQ=255)
ggAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGga > 1:3314338/1‑41 (MQ=255)
ggAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGga > 1:2180476/1‑41 (MQ=255)
ggAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGga > 1:74182/1‑41 (MQ=255)
ggAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGga > 1:1146947/1‑41 (MQ=255)
ggAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGga > 1:999205/1‑41 (MQ=255)
ccAGTGACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGACCAGTACCg < 1:2348471/69‑1 (MQ=255)
ccAGTGACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGACCAGTACCg < 1:2327689/69‑1 (MQ=255)
ccAGTGACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGACCAGTACCg < 1:1997762/69‑1 (MQ=255)
ccAGTGACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGACCAGTACCg < 1:575507/69‑1 (MQ=255)
ccAGTGACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGACCAGTACCg < 1:935107/69‑1 (MQ=255)
ccAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCgtg < 1:476119/54‑1 (MQ=255)
cAGTGACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGACCAGTACCg < 1:2665846/68‑1 (MQ=255)
aaCTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGACCAGTACCGATTGc > 1:182437/1‑69 (MQ=255)
aaCTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGACCAGTACCGATTGc > 1:1355259/1‑69 (MQ=255)
aaCTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGACCAGTACCGATTGc > 1:1236057/1‑69 (MQ=255)
|
TAACATAAGCGCCGCAGTCAGAGGTCGCTTCGATCAGGTCTTCAGCCGGTACGCATGGGAAGCCAGTAACTTCAGCCAGTTTTTTCACTGCCAGCGGAGAGTACTCTTTCGGCGTGTTCAGACCAGTACCGATTGC > minE/2829155‑2829290
|
| 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
