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 |
2,331,252 |
A→C |
28.4% |
intergenic (‑157/+273) |
sodA ← / ← fdhD |
superoxide dismutase, Mn/formate dehydrogenase formation protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,331,252 | 0 | A | C | 28.4%
| 162.1
/ 90.3
| 141 | intergenic (‑157/+273) | sodA/fdhD | superoxide dismutase, Mn/formate dehydrogenase formation protein |
| Reads supporting (aligned to +/- strand): ref base A (22/79); new base C (31/9); total (53/88) |
| Fisher's exact test for biased strand distribution p-value = 1.23e-09 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.04e-01 |
Only 100 of 141 total aligned reads displayed.
TATCAATGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACGGCGGCAACAGGCGAAAGGTTAATC > minE/2331185‑2331312
|
aaTGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCAc > 1:2311238/1‑68 (MQ=255)
tGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACtt < 1:2812575/68‑1 (MQ=255)
tGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACtt < 1:234/68‑1 (MQ=255)
tGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACtt < 1:637722/68‑1 (MQ=255)
tGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACtt < 1:151071/68‑1 (MQ=255)
tGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACtt < 1:2025150/68‑1 (MQ=255)
tGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACtt < 1:952468/68‑1 (MQ=255)
tGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACtt < 1:1456733/68‑1 (MQ=255)
tGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACtt < 1:375570/68‑1 (MQ=255)
tGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACtt < 1:848861/68‑1 (MQ=255)
gCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTaa > 1:3067767/1‑69 (MQ=255)
cTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGt < 1:176998/69‑1 (MQ=255)
cTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGt < 1:1565447/69‑1 (MQ=255)
cTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGt < 1:3202349/69‑1 (MQ=255)
cTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGt < 1:30908/69‑1 (MQ=255)
cTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGt < 1:1152967/69‑1 (MQ=255)
cTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGt < 1:2317227/69‑1 (MQ=255)
cTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGt < 1:2939990/69‑1 (MQ=255)
cTTTTCGTAAGGGTATGGTTTCGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGt < 1:1357343/69‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:2029063/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:568305/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:1839011/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:642152/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:1803176/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:100743/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:69310/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:1556872/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:758520/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:89737/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:1229087/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:933232/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAAACACTTAATGCCGTg < 1:631347/68‑1 (MQ=255)
tttCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGAAGTGAAGCAAATCAACCACTTAATGCCGTg < 1:2695935/68‑1 (MQ=255)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATg > 1:489358/1‑53 (MQ=38)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTaa > 1:2853072/1‑69 (MQ=39)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTaa > 1:1011868/1‑69 (MQ=39)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTaa > 1:2454609/1‑69 (MQ=39)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTaa > 1:3030314/1‑69 (MQ=39)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTaa > 1:3040938/1‑69 (MQ=39)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTaa > 1:3432328/1‑69 (MQ=39)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTaa > 1:1966751/1‑69 (MQ=39)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTaa > 1:1488380/1‑69 (MQ=39)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTaa > 1:2061365/1‑69 (MQ=39)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTaa > 1:929521/1‑69 (MQ=39)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTa > 1:2721625/1‑68 (MQ=39)
gTATGGTTTTGCAGGAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTa > 1:1136613/1‑68 (MQ=39)
aTGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaaa > 1:1111667/1‑68 (MQ=255)
aTGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaaa > 1:1003128/1‑68 (MQ=255)
tGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATc < 1:3078142/69‑1 (MQ=255)
tGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATc < 1:2250589/69‑1 (MQ=255)
tGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATc < 1:1053948/69‑1 (MQ=255)
tGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATc < 1:2240782/69‑1 (MQ=255)
tGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATc < 1:2024632/69‑1 (MQ=255)
tGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATc < 1:2101830/69‑1 (MQ=255)
tGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATc < 1:2551534/69‑1 (MQ=255)
tGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATc < 1:406141/69‑1 (MQ=255)
tGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATc < 1:737526/69‑1 (MQ=255)
gTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaa < 1:960750/64‑1 (MQ=255)
gTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaa < 1:3389071/64‑1 (MQ=255)
gTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaa < 1:729361/64‑1 (MQ=255)
gTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaa < 1:2619383/64‑1 (MQ=255)
gTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaa < 1:1307793/64‑1 (MQ=255)
gTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaa < 1:2450278/64‑1 (MQ=255)
gTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaa < 1:1845998/64‑1 (MQ=255)
gTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaa < 1:1955347/64‑1 (MQ=255)
gTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaa < 1:2147769/64‑1 (MQ=255)
gTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCg > 1:896158/1‑68 (MQ=255)
gTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCg > 1:2052217/1‑68 (MQ=255)
ttGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTg < 1:1728069/50‑1 (MQ=255)
gAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAgcggcg > 1:2110040/1‑68 (MQ=38)
gAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAgcggcg > 1:1524862/1‑68 (MQ=38)
gAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAgcggcg > 1:1967790/1‑68 (MQ=38)
gAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAgcggcg > 1:2133122/1‑68 (MQ=38)
gAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAgcggcg > 1:330616/1‑68 (MQ=38)
gAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAgcggcg > 1:3302624/1‑68 (MQ=38)
gAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAgcggcg > 1:3109226/1‑68 (MQ=38)
gAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAgcggcg > 1:3195261/1‑68 (MQ=38)
gAAAATGCCCAAGATGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAGcggc > 1:139477/1‑67 (MQ=38)
aaaaTGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTaaa > 1:1462987/1‑55 (MQ=255)
aaaaTGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACggcggc > 1:3323141/1‑69 (MQ=255)
aaaaTGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACggcggc > 1:834821/1‑69 (MQ=255)
aaaaTGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACggcggc < 1:2211711/69‑1 (MQ=255)
aaaaTGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACggcggc < 1:2198574/69‑1 (MQ=255)
aaaaTGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACggcggc < 1:2757265/69‑1 (MQ=255)
aaaaTGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACggcggc < 1:3370406/69‑1 (MQ=255)
aaTGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGt < 1:2418787/40‑1 (MQ=255)
gCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGt < 1:2333504/37‑1 (MQ=255)
gaTGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAGCGGCGGCAACa < 1:3302953/62‑1 (MQ=255)
gaTGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAGCGGCGGCAACa < 1:1707818/62‑1 (MQ=255)
gaTGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAGCGGCGGCAACa < 1:2378630/62‑1 (MQ=255)
gaTGTGAAGCAAATCACCCACTTAATGCCGTGATTGCCAGTAAATCGGCAGCGGCGGCAACa < 1:333034/62‑1 (MQ=255)
tgAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACGGCGGCAACAGGCGAAAGGtt > 1:1263073/1‑69 (MQ=255)
tgAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACGGCGGCAACAGGCGAAAGGtt > 1:3015227/1‑69 (MQ=255)
tgAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACGGCGGCAACAGGCGAAAGGtt > 1:1122582/1‑69 (MQ=255)
aaGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACGGCGGCAACAGGCGAAAGGTTaa > 1:216525/1‑69 (MQ=255)
gCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACGGCGGCAACAGGCGAAAGGTTAATc < 1:907481/69‑1 (MQ=255)
gCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACGGCGGCAACAGGCGAAAGGTTAATc < 1:1233972/69‑1 (MQ=255)
cAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACGGCGGCAACAGGCGAAAGGTTAATc < 1:667084/68‑1 (MQ=255)
cAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACggcggc > 1:1391333/1‑44 (MQ=255)
cAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACggcggc > 1:1807393/1‑44 (MQ=255)
|
TATCAATGCCGTACTTTTCGTAAGGGTATGGTTTTGCAGGAAAATGCCCGAGATGTGAAGCAAATCAACCACTTAATGCCGTGATTGCCAGTAAATCGACAACGGCGGCAACAGGCGAAAGGTTAATC > minE/2331185‑2331312
|
| 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
