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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
608,373 |
G→T |
24.9% |
G627G (GGC→GGA) |
pflB ← |
pyruvate formate lyase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 608,373 | 0 | G | T | 24.9%
| 105.7
/ 22.3
| 52 | G627G (GGC→GGA) | pflB | pyruvate formate lyase I |
| Reads supporting (aligned to +/- strand): ref base G (22/17); new base T (5/8); total (27/25) |
| Fisher's exact test for biased strand distribution p-value = 3.43e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.91e-01 |
AGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAA > minE/608304‑608443
|
aGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGgcgcgc > 1:980134/1‑71 (MQ=255)
aGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGgcgcgc > 1:3105067/1‑71 (MQ=255)
agagGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCac < 1:2490337/71‑1 (MQ=255)
agagGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCac < 1:1399283/71‑1 (MQ=255)
ggCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCacga > 1:2161674/1‑70 (MQ=255)
gCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCacgacg < 1:3342709/71‑1 (MQ=255)
cggCACCTTTGCGGTCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCg > 1:616796/3‑71 (MQ=255)
ggCACCTTTGAGGTCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCg < 1:276826/69‑1 (MQ=255)
gCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCacga > 1:3379603/1‑63 (MQ=255)
gCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCacga > 1:3639095/1‑63 (MQ=255)
gCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACgacgac > 1:933964/1‑67 (MQ=255)
cACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACgacgac > 1:5403555/1‑66 (MQ=255)
cACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCt > 1:5464753/1‑71 (MQ=255)
cACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCt > 1:5213759/1‑71 (MQ=255)
ccTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCttg < 1:2552236/71‑3 (MQ=255)
ttCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAg > 1:2966184/1‑52 (MQ=255)
ttCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGgt > 1:4138635/1‑71 (MQ=255)
ttCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGgt > 1:2646935/1‑71 (MQ=255)
tgcggTCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCgt < 1:1831786/67‑1 (MQ=255)
tCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGgt < 1:2347125/70‑1 (MQ=255)
cTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCacga > 1:2409864/1‑55 (MQ=255)
gTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGgtgt < 1:502969/68‑1 (MQ=255)
gTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTAc > 1:3947601/1‑71 (MQ=255)
gTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTAc > 1:5106630/1‑71 (MQ=255)
gTCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTAc < 1:1035538/71‑1 (MQ=255)
tCACGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCgta > 1:4677054/1‑65 (MQ=255)
aCGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTggg > 1:928333/1‑61 (MQ=255)
aCGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTAccgg > 1:4037640/1‑69 (MQ=255)
aCGACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTAccg < 1:2079948/70‑2 (MQ=255)
gACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGtt < 1:1515024/71‑1 (MQ=255)
gACCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGtt < 1:3841163/71‑1 (MQ=255)
aCCATGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGttt < 1:4754005/71‑1 (MQ=255)
gTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCt < 1:2869956/71‑1 (MQ=255)
tGCATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGtt > 1:5672208/1‑66 (MQ=255)
gCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTa > 1:4342200/1‑71 (MQ=255)
cATCGGGTTAGCGCCCGGCGCGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCtggc < 1:1104124/71‑4 (MQ=255)
aTCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTgg > 1:2202266/1‑50 (MQ=255)
gggTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATa < 1:1332168/71‑1 (MQ=255)
ttAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCg < 1:1314312/39‑1 (MQ=255)
aGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACaa > 1:4628740/1‑71 (MQ=255)
cACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACg < 1:3273572/71‑1 (MQ=255)
cACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACg > 1:5220220/1‑71 (MQ=255)
aCCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGt < 1:1479695/71‑1 (MQ=255)
cccGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGt > 1:2916497/1‑70 (MQ=255)
cGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAg < 1:1196942/71‑1 (MQ=255)
cGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAg < 1:4386550/71‑1 (MQ=255)
gTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGttt < 1:5369907/48‑1 (MQ=255)
ccGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTAcc > 1:321984/1‑53 (MQ=255)
cGAACGGTGTTCCGGCGCGACGACCGTCCGGCGTATTACCGGTTTTCTGGCCGTACACCACGTTAGAAGt > 1:3633108/1‑70 (MQ=255)
cGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTg < 1:899285/71‑1 (MQ=255)
aaCGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAg < 1:5010659/64‑1 (MQ=255)
aaCGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAg < 1:2862864/64‑1 (MQ=255)
aaCGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGAt > 1:3351370/1‑71 (MQ=255)
cGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATgg > 1:3361145/1‑71 (MQ=255)
gcgcgcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGt > 1:1669343/1‑70 (MQ=255)
gcgcgcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGt > 1:2058523/1‑70 (MQ=255)
gcgcgcCAGCACGACGACCGTCTGGGGTGTTAACCGTTTTCTTACCATACACAACGTTAGAAGTGATGGt > 1:2981590/1‑70 (MQ=255)
gcgcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATaca < 1:2340756/49‑1 (MQ=255)
gcgcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATaca < 1:3983295/49‑1 (MQ=255)
gcgcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGt < 1:210484/55‑1 (MQ=255)
gcgcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGt < 1:4115035/55‑1 (MQ=255)
cgcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAg > 1:2490241/1‑70 (MQ=255)
gcCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGaa > 1:781163/1‑71 (MQ=255)
|
AGTCAGAGAGGCTACTGCACCTTTCTGGTCACGACCGTGCATCGGGTTAGCACCCGGTCCGAACGGCGCGCCAGCACGACGACCGTCTGGGGTGTTACCCGTTTTCTTACCATACACAACGTTAGAAGTGATGGTCAGAA > minE/608304‑608443
|
| 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
