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 |
1,990,864 |
A→G |
69.9% |
Q286Q (CAA→CAG) |
mutY → |
adenine DNA glycosylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,990,864 | 0 | A | G | 69.9%
| 38.7
/ 16.5
| 43 | Q286Q (CAA→CAG) | mutY | adenine DNA glycosylase |
| Reads supporting (aligned to +/- strand): ref base A (5/8); new base G (4/26); total (9/34) |
| Fisher's exact test for biased strand distribution p-value = 1.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.24e-01 |
GTTTGCGGCAGTGGCTGGCGCAACGGCAGATTGCTGCCGATAACCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCTATGTGG > minE/1990812‑1990921
|
gTTTGCGGCAGTGGCTGGCGCAACGGCAGATTGCTGCCGATAACCTGACGCAACTGACCGCGTTTCgg < 1:1642259/68‑1 (MQ=255)
gTTTGCGGCAGTGGCTGGCGCAACGGCAGATTGCTGCCGATAACCTGACGCAACTGACCGCGTTTCgg < 1:3248465/68‑1 (MQ=255)
aaCGACAGATTGCTGCCGATAACCTGACGCAGCTGACCGCGTTTCGGCATACCTTCAGCCATTTCCa > 1:215474/1‑67 (MQ=255)
aaCGACAGATTGCTGCCGATAACCTGACGCAGCTGACCGCGTTTCGGCATACCTTCAGCCATTTCCa > 1:2813848/1‑67 (MQ=255)
aaCGACAGATTGCTGCCGATAACCTGACGCAGCTGACCGCGTTTCGGCATACCTTCAGCCATTTCCa > 1:3104759/1‑67 (MQ=255)
aaCGACAGATTGCTGCCGATAACCTGACGCAGCTGACCGCGTTTCGGCATACCTTCAGCCATTTCCa > 1:1238766/1‑67 (MQ=255)
cGGCAGATTGCTGCCGATAACCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTa < 1:1022035/69‑1 (MQ=255)
cGGCAGATTGCTGCCGATAACCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTa < 1:2251640/69‑1 (MQ=255)
gCAGATTGCTGCCGATAACCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGa < 1:1350023/69‑1 (MQ=255)
gCAGATTGCTGCCGATAACCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGa < 1:2828957/69‑1 (MQ=255)
gCAGATTGCTGCCGATAACCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGa < 1:2798976/69‑1 (MQ=255)
gCAGATTGCTGCCGATAACCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGa < 1:2478291/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCGTTTCCACTTAGATATTGTGCCt < 1:1091677/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:367881/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:354992/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:3263092/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:3211066/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:728326/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:871167/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:905425/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:1043690/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:2727369/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:2510283/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:1657693/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:1052686/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:1081578/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:110238/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:1406692/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:1411217/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:1446843/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:1510753/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:2056333/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:213218/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:2299553/69‑1 (MQ=255)
gcCGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCACTTCCACTTAGATATTGTGCCt < 1:2691967/69‑1 (MQ=255)
ccGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:1929615/68‑1 (MQ=255)
ccGATAACCTGACGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:741873/68‑1 (MQ=255)
aaCCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCAc > 1:1405209/1‑48 (MQ=255)
aaCCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCTATGTgg > 1:2914174/1‑69 (MQ=255)
aaCCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCTATGTgg > 1:2984860/1‑69 (MQ=255)
aaCCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCTATGTgg > 1:2465032/1‑69 (MQ=255)
aaCCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCTATGTgg > 1:2908812/1‑69 (MQ=255)
aCGCAGCTGACAGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCt < 1:2415779/57‑1 (MQ=255)
|
GTTTGCGGCAGTGGCTGGCGCAACGGCAGATTGCTGCCGATAACCTGACGCAACTGACCGCGTTTCGGCATACCTTCAGCCATTTCCACTTAGATATTGTGCCTATGTGG > minE/1990812‑1990921
|
| 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
