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 |
2,558,446 |
T→C |
40.0% |
G211G (GGT→GGC) |
gpsA → |
glycerol‑3‑phosphate dehydrogenase (NAD+) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,558,446 | 0 | T | C | 40.0%
| 24.6
/ 44.1
| 65 | G211G (GGT→GGC) | gpsA | glycerol‑3‑phosphate dehydrogenase (NAD+) |
| Reads supporting (aligned to +/- strand): ref base T (21/18); new base C (14/12); total (35/30) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.31e-01 |
CTTGGCGGCGCGGTGAAAAACGTTATTGCCATTGGTGCGGGGATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTCGCGTCTTGGTG > minE/2558381‑2558504
|
cTTGGCGGCGCGGTGAAAAACGTTATTGCCATTGGTGCGGGGATGTCCGACGGTATCGGTTTTGGTGCg < 1:662853/69‑1 (MQ=255)
tGGCGGCGCGGTGAAAAACGTTATTGCCATTGGTGCGGGGATGTCCGACGGTATCGGTTTTGGTGCg < 1:34887/67‑1 (MQ=255)
ggTGCGGGGATGTCCGACGGTATCGGTTTTGGTGCGAATgcg < 1:745667/42‑1 (MQ=255)
ggTGCGGGGATGTCCGACGGTATCGGTTTTGGTGCGAATgcg < 1:2640090/42‑1 (MQ=255)
ggTGCGGGGATGTCCGACGGTATCGGTTTTGGTGCGAATgcg < 1:1408664/42‑1 (MQ=255)
ggTGCGGGGATGTCCGACGGTATCGGTTTTGGTGCGAATgcg < 1:2542503/42‑1 (MQ=255)
ggTGCGGGGATGTCCGACGGTATCGGTTTTGGTGCGAATgcg < 1:1674984/42‑1 (MQ=255)
ggTGCGGGGATGGCCGACGGTATCGGTTTTGGTGCGAATgcg < 1:124379/42‑1 (MQ=255)
gggATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGa < 1:582777/68‑1 (MQ=255)
gggATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGa < 1:3039309/68‑1 (MQ=255)
gggATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGa < 1:3253003/68‑1 (MQ=255)
gggATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGa < 1:2488369/68‑1 (MQ=255)
gggATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGa < 1:456660/68‑1 (MQ=255)
gggATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGa < 1:465402/68‑1 (MQ=255)
gggATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGa < 1:1587031/68‑1 (MQ=255)
gggATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGa < 1:1281274/68‑1 (MQ=255)
gggATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGa < 1:669609/68‑1 (MQ=255)
gggATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGa < 1:1227560/68‑1 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:2286496/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:2318988/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:973152/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:3155020/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:3304575/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:386533/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:442720/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:583065/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:1155232/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:1723033/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:1815391/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:1188448/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:1882745/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:144655/1‑69 (MQ=255)
tCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTcg > 1:1424741/1‑69 (MQ=255)
aCGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTCGCGTc > 1:1818865/1‑69 (MQ=255)
aCGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTCGCGTc > 1:3070462/1‑69 (MQ=255)
aCGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTCGCGTc > 1:1863774/1‑69 (MQ=255)
aCGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTAGCGTc > 1:358289/1‑69 (MQ=255)
aCGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGATGAAATGTCGCGTc > 1:1887143/1‑69 (MQ=255)
aTCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTCGCGTCTTGGt > 1:2958844/1‑69 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGgctggctg > 1:2590880/1‑51 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGt > 1:1263267/1‑62 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:3243706/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:1330267/69‑3 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:467302/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:1678912/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:70263/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:1697462/69‑3 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:789875/69‑3 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:855101/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:1764783/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:1167557/69‑3 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:1773304/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:1801138/69‑3 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:2233943/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:3045790/69‑3 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:1849929/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:301407/69‑3 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:3002511/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:2646968/69‑3 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:2538764/69‑3 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:2528285/69‑3 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:2370741/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:2067837/69‑3 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg > 1:2315955/1‑67 (MQ=255)
tCGGTTTTGGCGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAGATGTCGCGTCTTggcg < 1:2090468/69‑3 (MQ=255)
|
CTTGGCGGCGCGGTGAAAAACGTTATTGCCATTGGTGCGGGGATGTCCGACGGTATCGGTTTTGGTGCGAATGCGCGTACGGCGCTGATCACCCGTGGGCTGGCTGAAATGTCGCGTCTTGGTG > minE/2558381‑2558504
|
| 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
