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 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,823,871 |
A→G |
9.2% |
intergenic (+616/+342) |
nrfG → / ← pheU |
heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfG/tRNA‑Phe |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,823,871 | 0 | A | G | 9.2%
| 152.4
/ 6.7
| 54 | intergenic (+616/+342) | nrfG/pheU | heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfG/tRNA‑Phe |
| Reads supporting (aligned to +/- strand): ref base A (24/25); new base G (2/3); total (26/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 |
TGCCAAAGAAAAATGTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCTCATCAGT > minE/2823802‑2823938
|
tGCCAAAGAAAAATGTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGatta < 1:1616382/70‑1 (MQ=255)
gAAAAATGTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCtt > 1:603626/1‑71 (MQ=255)
gTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCAt > 1:715542/1‑69 (MQ=255)
ttCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAg < 1:1092205/71‑1 (MQ=255)
ttCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAg < 1:2000238/71‑1 (MQ=255)
aGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCa < 1:39662/70‑1 (MQ=255)
gAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCa < 1:3501584/69‑1 (MQ=255)
aaaTAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCg < 1:549668/71‑1 (MQ=255)
aataatCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGa < 1:1023178/71‑1 (MQ=255)
ataatCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGaa < 1:2426717/71‑1 (MQ=255)
ataatCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGaa < 1:648093/71‑1 (MQ=255)
atCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTg < 1:2364189/71‑1 (MQ=255)
ccATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGa > 1:1837396/1‑70 (MQ=255)
gAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTc < 1:3477032/43‑1 (MQ=255)
gAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTc > 1:3042167/1‑43 (MQ=255)
gAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGa < 1:272795/60‑1 (MQ=255)
aaaTTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAAc > 1:917854/1‑60 (MQ=255)
aaTTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCAt > 1:47448/1‑47 (MQ=255)
aaTTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTg < 1:4813/61‑1 (MQ=255)
aaTTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTtct < 1:2197948/71‑1 (MQ=255)
aaTTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTtc > 1:2144430/1‑70 (MQ=255)
ttGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCg < 1:2720594/54‑1 (MQ=255)
ttGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTctct < 1:469026/71‑1 (MQ=255)
gTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGaa > 1:3443946/1‑54 (MQ=255)
cGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGt > 1:1221707/1‑70 (MQ=255)
ggAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTtctc > 1:168609/1‑64 (MQ=255)
gCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCttt < 1:751095/64‑1 (MQ=255)
cTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCg < 1:2947295/42‑1 (MQ=255)
cTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTg < 1:640988/47‑1 (MQ=255)
cTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTg < 1:1635917/47‑1 (MQ=255)
ttACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTTAt < 1:994949/48‑1 (MQ=255)
ttACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCg < 1:528674/41‑1 (MQ=255)
ttACTATTTTAATGCATTGTTAGTCTTTGCATGAGCAAGCGAACTGAt < 1:517769/48‑1 (MQ=255)
tACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGaa > 1:2264549/1‑42 (MQ=255)
tACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGaa > 1:2507491/1‑42 (MQ=255)
tACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAAc > 1:2024131/1‑43 (MQ=255)
tACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAAc > 1:433843/1‑43 (MQ=255)
tACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGAt > 1:1151220/1‑47 (MQ=255)
tACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGAt > 1:3494341/1‑47 (MQ=255)
tACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGAt > 1:2577231/1‑47 (MQ=255)
tACTATTTTAATGGAATATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCAtt > 1:283601/1‑68 (MQ=255)
aCTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTtc < 1:2212647/62‑1 (MQ=255)
cTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGa > 1:1646200/1‑70 (MQ=255)
cTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGa > 1:3130664/1‑70 (MQ=255)
tATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTtct < 1:3295082/61‑1 (MQ=255)
tATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCa > 1:3605607/1‑63 (MQ=255)
tATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCa > 1:3435820/1‑63 (MQ=255)
aTTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGaa > 1:1098113/1‑38 (MQ=255)
ttttAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCa > 1:2972981/1‑61 (MQ=255)
ttttAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCa > 1:3093234/1‑61 (MQ=255)
tttAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTc < 1:3373701/63‑1 (MQ=255)
aTGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAAtctc < 1:3703379/69‑1 (MQ=255)
tGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCtcatc < 1:2692518/71‑1 (MQ=255)
tGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCtcatc < 1:1754082/71‑1 (MQ=255)
gATTATTAGTCTTTGCATGAGCAGGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCTCATCAg > 1:1792504/1‑71 (MQ=255)
attattAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCtcatca < 1:1915435/69‑1 (MQ=255)
attattAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCTCATCAg > 1:875258/1‑70 (MQ=255)
attattAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCTCATCAGt > 1:2202377/1‑71 (MQ=255)
|
TGCCAAAGAAAAATGTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCTCATCAGT > minE/2823802‑2823938
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
