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 |
|
A1 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,821,480 |
T→C |
76.0% |
T316A (ACC→GCC) |
recA ← |
DNA strand exchange and recombination protein with protease and nuclease activity |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,821,480 | 0 | T | C | 76.0%
| 94.5
/ 28.4
| 50 | T316A (ACC→GCC) | recA | DNA strand exchange and recombination protein with protease and nuclease activity |
| Reads supporting (aligned to +/- strand): ref base T (8/4); new base C (12/26); total (20/30) |
| Fisher's exact test for biased strand distribution p-value = 4.45e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01 |
GAAATCCGGCGTTGAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCTTTGTAGC > W3110S.gb/2821412‑2821548
|
gaAATCCGGCGTTGAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGctt > 1:2985916/1‑71 (MQ=255)
gaAATCCGGCGTTGAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGctt > 1:1724953/1‑71 (MQ=255)
gAGTTCGGGTTGCTCAGCAGCAACTCACGTACTATCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCttt > 1:3306567/1‑71 (MQ=255)
cGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGc > 1:3525766/1‑70 (MQ=255)
cGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGc > 1:158038/1‑70 (MQ=255)
cGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGc > 1:2713232/1‑70 (MQ=255)
tGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAgg > 1:1448143/1‑69 (MQ=255)
gCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGc > 1:254351/1‑64 (MQ=255)
gCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGc > 1:1593623/1‑64 (MQ=255)
cTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAg > 1:3593279/1‑70 (MQ=255)
cTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGt < 1:3465806/71‑1 (MQ=255)
cTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGt > 1:1292612/1‑71 (MQ=255)
agcagcAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCg < 1:1832089/70‑1 (MQ=255)
agcagcAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCg < 1:771541/70‑1 (MQ=255)
agcagcAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCg < 1:3504196/70‑1 (MQ=255)
agcagcAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCg < 1:931165/70‑1 (MQ=255)
agcagcAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGc < 1:3212327/71‑1 (MQ=255)
gcagcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCa < 1:1193140/71‑1 (MQ=255)
gcagcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCa < 1:944131/71‑1 (MQ=255)
gcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGcc < 1:1888979/57‑1 (MQ=255)
gcaACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGcc < 1:89212/57‑1 (MQ=255)
caACTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCg < 1:1127398/71‑1 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc > 1:2484975/1‑71 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc > 1:2604016/1‑71 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc > 1:3003191/1‑71 (MQ=255)
cTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt < 1:522637/71‑1 (MQ=255)
cTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt < 1:2100480/71‑1 (MQ=255)
cTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt < 1:583791/71‑1 (MQ=255)
cTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt < 1:345526/71‑1 (MQ=255)
cACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTa > 1:1330370/1‑71 (MQ=255)
cACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCAAGGCAGTCGCATTCGCTTTa > 1:2791118/1‑71 (MQ=255)
aCGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTAc < 1:1271655/71‑1 (MQ=255)
aCGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCttt < 1:237819/69‑1 (MQ=255)
aCGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCttt < 1:184994/69‑1 (MQ=255)
aCGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCttt < 1:2806008/69‑1 (MQ=255)
aCGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTa < 1:3118371/70‑1 (MQ=255)
aCGTACTTTCTTCTCGATCTCTTTCGCGGCTCCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCttt < 1:1886630/69‑1 (MQ=255)
tACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCt > 1:3332367/1‑71 (MQ=255)
tACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCt > 1:1474133/1‑71 (MQ=255)
tACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACACt > 1:2307654/1‑71 (MQ=255)
cttctCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCg < 1:3097790/70‑1 (MQ=255)
cttctCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCg < 1:64015/70‑1 (MQ=255)
cttctCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCg < 1:3101926/70‑1 (MQ=255)
ctcGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGa < 1:530590/68‑1 (MQ=255)
ctcGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGa < 1:465625/68‑1 (MQ=255)
ctcGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGa < 1:710813/68‑1 (MQ=255)
aTCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCg < 1:99054/63‑1 (MQ=255)
tttCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCAc < 1:3465085/68‑1 (MQ=255)
tttCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCAc < 1:3362752/68‑1 (MQ=255)
ggTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCa > 1:525276/1‑61 (MQ=255)
ggTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCTTTGTAGc > 1:722429/1‑71 (MQ=255)
ggTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCTTTGTAGc > 1:2268433/1‑71 (MQ=255)
|
GAAATCCGGCGTTGAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCTTTGTAGC > W3110S.gb/2821412‑2821548
|
| 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
