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 |
1,494,028 |
A→G |
55.2% |
R710R (CGT→CGC) |
nuoG ← |
NADH:ubiquinone oxidoreductase, chain G |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,494,028 | 0 | A | G | 55.2%
| 8.4
/ 36.5
| 49 | R710R (CGT→CGC) | nuoG | NADH:ubiquinone oxidoreductase, chain G |
| Reads supporting (aligned to +/- strand): ref base A (14/8); new base G (14/13); total (28/21) |
| Fisher's exact test for biased strand distribution p-value = 5.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
AATATCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGGCGCAGCATCTTTGAT > minE/1493962‑1494096
|
aaTATCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCGCTGTAACg > 1:1496060/1‑69 (MQ=255)
tatCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATTGCGGTACGACCACTATAGCgat < 1:1893086/69‑3 (MQ=255)
tatCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:1069036/69‑3 (MQ=255)
tatCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:927101/69‑3 (MQ=255)
tatCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:3431536/69‑3 (MQ=255)
tatCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:3301429/69‑3 (MQ=255)
tatCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:321256/69‑3 (MQ=255)
tatCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:2912230/69‑3 (MQ=255)
tatCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:290290/69‑3 (MQ=255)
tatCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:2587253/69‑3 (MQ=255)
tatCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:2411675/69‑3 (MQ=255)
tatCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:1766172/69‑3 (MQ=255)
atCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:2860703/68‑3 (MQ=255)
atCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCgat < 1:2569037/68‑3 (MQ=255)
gCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCa < 1:310179/68‑1 (MQ=255)
gCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCa < 1:753795/68‑1 (MQ=255)
gCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCa < 1:592301/68‑1 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGGGGTTCACg > 1:102948/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCAc > 1:1290475/1‑68 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:1321083/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:2905904/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:263277/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:430518/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:1695563/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:2398458/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:2301270/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:700729/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:2257405/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:2157727/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:2101837/1‑69 (MQ=255)
cTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCACTATAGCGATGCGGTTCACg > 1:1996465/1‑69 (MQ=255)
ggCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGaa > 1:596323/1‑69 (MQ=255)
ggCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGaa > 1:379328/1‑69 (MQ=255)
ggCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGaa > 1:2219973/1‑69 (MQ=255)
ggCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGaa > 1:2018859/1‑69 (MQ=255)
ggCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGaa > 1:340990/1‑69 (MQ=255)
ggCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGaa > 1:2939931/1‑69 (MQ=255)
ggCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGaa > 1:3353395/1‑69 (MQ=255)
ggCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGaa > 1:1360882/1‑69 (MQ=255)
ggCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGa > 1:1516807/1‑68 (MQ=255)
gCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATcc > 1:3158047/1‑69 (MQ=255)
gTACGACCGCTGTAACGGTGCGGTTCACGGGCCTGTTTCTGCCCACGAATACGGAAt < 1:1393539/57‑1 (MQ=255)
aCGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCa > 1:2266224/1‑61 (MQ=255)
aCGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGgcgc > 1:2306726/1‑69 (MQ=255)
aCGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGgcgc > 1:74285/1‑69 (MQ=255)
gCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGGCGCAGCATc < 1:2312072/69‑1 (MQ=255)
gCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGGCGCAGCATc < 1:1996866/69‑1 (MQ=255)
gCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGGCGCAGCATc < 1:783004/69‑1 (MQ=255)
cTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGGCGCAGCATc < 1:724653/68‑1 (MQ=255)
aCGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGGCGCAGCATCTTTGAt < 1:2688970/69‑1 (MQ=255)
aCGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGGCGCAGCATCTTTGAt < 1:158854/69‑1 (MQ=255)
aCGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGGCGCAGCATCTTTGAt < 1:2428298/69‑1 (MQ=255)
aCGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGGCGCAGCATCTTTGAt < 1:171654/69‑1 (MQ=255)
|
AATATCCTGCGGCTGACGCGGCTCATGAACGCTGATATTGGCGCGCATGGCGGTACGACCGCTGTAACGGTGCGGTTCACGGGCCAGTTTCTGCCCACGAATACGGAATGTCGCATCCGGCGCAGCATCTTTGAT > minE/1493962‑1494096
|
| 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
