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 |
3,682,573 |
G→A |
100% |
L211L (CTG→TTG) |
ilvD ← |
dihydroxyacid dehydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,682,573 | 0 | G | A | 87.5%
| 102.1
/ 7.4
| 40 | L211L (CTG→TTG) | ilvD | dihydroxyacid dehydratase |
| Reads supporting (aligned to +/- strand): ref base G (5/0); new base A (12/23); total (17/23) |
| Fisher's exact test for biased strand distribution p-value = 9.40e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.90e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AAGGAACAGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAGCGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCGCAGGTCG > W3110S.gb/3682505‑3682635
|
aaGGAACAGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAgcg > 1:1535465/1‑71 (MQ=255)
aaGGAACAGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAgcg > 1:1576329/1‑71 (MQ=255)
aaGGAACAGCTGATTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAgcg > 1:1449813/1‑71 (MQ=255)
ggAACAGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAacg < 1:951229/69‑1 (MQ=255)
ggAACAGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAacg < 1:805999/69‑1 (MQ=255)
ggAACAGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAacg < 1:3327390/69‑1 (MQ=255)
ggAACAGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAacg < 1:3417773/69‑1 (MQ=255)
aaCAGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAGCGCTTc > 1:441148/1‑71 (MQ=255)
aaCAGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGAGACAGGCCCAGCGCTTc > 1:2575936/1‑71 (MQ=255)
aGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAGCGCTTCGGt > 1:2424045/1‑71 (MQ=255)
aGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAGCGCTTCGGt > 1:175669/1‑71 (MQ=255)
ctTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAgg < 1:2196695/70‑1 (MQ=255)
ctTACGGGCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAgg < 1:3345415/70‑1 (MQ=255)
cGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGtt < 1:450244/71‑1 (MQ=255)
cGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGtt < 1:238680/71‑1 (MQ=255)
cGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGtt < 1:1996780/71‑1 (MQ=255)
cGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGtt < 1:2646339/71‑1 (MQ=255)
cGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGtt < 1:89952/71‑1 (MQ=255)
cGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGt > 1:1033437/1‑70 (MQ=255)
cGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCAGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGtt < 1:581930/71‑1 (MQ=255)
ggTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTc < 1:3185952/71‑1 (MQ=255)
ggTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTc < 1:21987/71‑1 (MQ=255)
ggTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTc < 1:3543221/71‑1 (MQ=255)
ggTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTc < 1:1482781/71‑1 (MQ=255)
cGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGtt < 1:1107378/64‑1 (MQ=255)
tGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCgg > 1:2748801/1‑71 (MQ=255)
ccAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTa < 1:1231399/71‑1 (MQ=255)
ccgcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAAc > 1:702788/3‑70 (MQ=255)
cagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCg > 1:3101797/1‑40 (MQ=255)
cagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAg > 1:978199/1‑45 (MQ=255)
cagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACa > 1:739279/1‑71 (MQ=255)
cagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACa > 1:2915094/1‑71 (MQ=255)
cagcGAGCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACa > 1:1765210/1‑71 (MQ=255)
agcGAGCCGTTGCCCGGCTGCGACAGGCCCAGCGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACAt > 1:3620125/1‑71 (MQ=255)
gCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCgg < 1:3370093/71‑1 (MQ=255)
gCCGTTGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCgg < 1:1372651/71‑1 (MQ=255)
ttGCCCGGCTGCGACAGGCCCAACGCTTCGGTCTGGCAGTTCATTGAGTTAGCGGTa < 1:1337955/57‑1 (MQ=255)
ttGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTg < 1:1728287/46‑1 (MQ=255)
ttGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTg < 1:3044200/46‑1 (MQ=255)
tGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTg < 1:3138993/45‑1 (MQ=255)
tGCCCGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAg > 1:14403/1‑71 (MQ=255)
cccGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCgg < 1:3693855/64‑1 (MQ=255)
cccGGCTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGa < 1:3529535/71‑1 (MQ=255)
cTGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGc < 1:1916173/62‑1 (MQ=255)
tGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCg > 1:1642649/1‑69 (MQ=255)
tGCGACAGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCg > 1:1878844/1‑69 (MQ=255)
aGGCCCAACGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCGCAGGTCg > 1:1614914/1‑70 (MQ=255)
|
AAGGAACAGCTGCTTACGGTCGGCGTGGGTTGCCAGCAGCGAGCCGTTGCCCGGCTGCGACAGGCCCAGCGCTTCGGTCAGGCAGTTCATTGAGTTAGCGGTAAACATCCCGGAGCAGGAACCGCAGGTCG > W3110S.gb/3682505‑3682635
|
| 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
