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 |
2,562,697 |
A→G |
22.1% |
D460D (GAT→GAC) |
lldP ← |
L‑lactate permease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,562,697 | 0 | A | G | 22.1%
| 143.0
/ 36.4
| 77 | D460D (GAT→GAC) | lldP | L‑lactate permease |
| Reads supporting (aligned to +/- strand): ref base A (21/39); new base G (8/9); total (29/48) |
| Fisher's exact test for biased strand distribution p-value = 4.04e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACAGATCAGAGACGCCAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACC > minE/2562627‑2562762
|
aCAGATCAGAGACGCCAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTa > 1:21861/1‑71 (MQ=255)
cAGATCAGAGACGCCAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTAt > 1:384786/1‑71 (MQ=255)
aGATCAGAGACGCCAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATc > 1:859256/1‑71 (MQ=255)
tgtCAGAGACGTTGATTTGCTGCGCCGTGGTCGATTGCAGTGAACCAAACAGGGCGTTAGAGGAGGTGTcc < 1:2917850/69‑1 (MQ=255)
tgtCAGAGACGTTGATTTGCTGCGCCGTGGTCGATTGCAGTGAACCAAACAGGGCGTTAGAGGAGGTGTcc < 1:1441043/69‑1 (MQ=255)
tgtCAGAGACGTTGATTTGCTGCGCCGTGGTCGATTGCAGTGAACCAAACAGGGCGTTAGAGGAGGTGTcc < 1:1458391/69‑1 (MQ=255)
tgtCAGAGACGTTGATTTGCTGCGCCGTGGTCGATTGCAGTGAACCAAACAGGGCGTTAGAGGAGGTGTcc < 1:3939528/69‑1 (MQ=255)
gATCAGAGACGCCAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATcc < 1:781401/71‑1 (MQ=255)
gATCAGAGACGCCAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATc < 1:4643528/70‑1 (MQ=255)
tCAGAGACGTTGATTTGCTGCGCCGTGGTCGATTGCAGTGAACCAAACAGGGCGTTAGAGGAGGTGTCCg < 1:5636860/70‑1 (MQ=255)
tCAGAGACGTTGATTTGCTGCGCCGTGGTCGATTGCAGTGAACCAAACAGGGCGTTAGAGGAGGTGTCCg < 1:5379648/70‑1 (MQ=255)
cAGAGACGCCAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGAc > 1:2162155/1‑71 (MQ=255)
agagACGTTGATTTGCTGCGCCGTGGTCGATTGCAGTGAACCAAACAGGGCGTTAGAGGAGGTGTCCGagc > 1:3657939/1‑69 (MQ=255)
agagACGCCAATTTGTTGTGCTGCGGTGCCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGAcc > 1:4155344/1‑71 (MQ=255)
agaCGCCAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCg < 1:4083833/71‑1 (MQ=255)
aCGCCAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGt < 1:2688111/71‑1 (MQ=255)
gCCAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTc < 1:4373999/70‑1 (MQ=255)
ccAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAg < 1:5506855/71‑1 (MQ=255)
ccAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAg < 1:2247352/71‑1 (MQ=255)
ccAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAg < 1:5038296/71‑1 (MQ=255)
cAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAgg < 1:1007519/71‑1 (MQ=255)
cAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAg > 1:1724878/1‑70 (MQ=255)
aaTTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAgg > 1:4393023/1‑70 (MQ=255)
aaTTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAgg > 1:3127479/1‑70 (MQ=255)
aTTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGaa < 1:2489262/71‑1 (MQ=255)
tttGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGaa > 1:5026726/1‑70 (MQ=255)
tgttgtGCTGCGGTGGCTTGCAGCGCGGCTAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATa < 1:281282/70‑1 (MQ=255)
tgttgtGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATa < 1:2174298/70‑1 (MQ=255)
tgttgtGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATAc > 1:4025032/1‑71 (MQ=255)
tgctgcGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCcca < 1:2720917/71‑1 (MQ=255)
gctgcGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAg > 1:4986613/1‑59 (MQ=255)
gctgcGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAg > 1:4231222/1‑59 (MQ=255)
tgcGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAgg < 1:379085/58‑1 (MQ=255)
tgcGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAgg < 1:552893/58‑1 (MQ=255)
tgcGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGaa < 1:1714504/60‑1 (MQ=255)
tgcGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGaa < 1:829364/60‑1 (MQ=255)
gcGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCccagc > 1:1995086/1‑69 (MQ=255)
gTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCagccagcc > 1:3022863/1‑71 (MQ=255)
tGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGt < 1:3863161/49‑1 (MQ=255)
tGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCagccagcc < 1:1658321/70‑1 (MQ=255)
ggCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCagccagcc > 1:3255476/1‑69 (MQ=255)
ttGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGAcc < 1:5156631/41‑1 (MQ=255)
gCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGa < 1:915637/69‑1 (MQ=255)
cAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAAc < 1:4768465/70‑1 (MQ=255)
cAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCAGTCAGGAATACCCCCAGCCAGCCGAGGAAc < 1:2596432/70‑1 (MQ=255)
aGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACgg > 1:383742/1‑71 (MQ=255)
cggcgAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCagccagcc < 1:324851/58‑1 (MQ=255)
cggcgAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCg < 1:5575591/69‑1 (MQ=255)
gcgAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCcca > 1:3175738/1‑49 (MQ=255)
gcgAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGagaa < 1:2752940/71‑1 (MQ=255)
gAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGagaaga < 1:699560/71‑1 (MQ=255)
aaaCAGGGCGTTAGAGGAGGTGTCCGAGCCGGTAAGGaa > 1:2414073/2‑39 (MQ=25)
aaCAGGGCGTTAGATGAGGTATCCGACCCGGTCAgg < 1:1439776/36‑1 (MQ=255)
aaCAGGGCGTTAGATGAGGTATCCGACCCGGTCAgg < 1:5387027/36‑1 (MQ=255)
aaCAGGGCGTTAGAGGAGGTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGAgaagaa < 1:1829411/71‑1 (MQ=255)
aaCAGGGCGTTAGAGGAGGTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGAgaagaa < 1:1830777/71‑1 (MQ=255)
aCAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGaagaag > 1:170310/1‑71 (MQ=255)
aCAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGaagaag > 1:3731184/1‑71 (MQ=255)
aGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGt < 1:1533219/71‑1 (MQ=255)
aGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGt < 1:4194809/71‑1 (MQ=255)
aGGGCGTTAGAGGAGGTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACgg > 1:4234613/1‑59 (MQ=255)
aGGGCGTTAGAGGAGGTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGAgaagaa > 1:1320443/1‑68 (MQ=255)
gggCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTg < 1:260290/71‑1 (MQ=255)
gggCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTg < 1:3965777/71‑1 (MQ=255)
gggCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCACCAGCCAGCCGAGGAACGGCGagaaga < 1:4815674/66‑1 (MQ=255)
gCGTTAGAGGAGGTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGAGAAGAACGGGaa > 1:4260842/1‑71 (MQ=255)
gCGTTAGAGGAGGTGTCCGAGCCGCTAAGCAATACGCCCAGCCAGCCGAGAAACGGTGAGAAGAACGGGaa > 1:3230097/1‑71 (MQ=255)
ttAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGagaag < 1:5207988/60‑1 (MQ=255)
ttAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAAt < 1:5457942/69‑1 (MQ=255)
ttAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAAt < 1:3331589/69‑1 (MQ=255)
ttAGAGGAGGTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGAGAAGAACGGGaacat < 1:4839846/71‑4 (MQ=255)
agagGAGGTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACggt > 1:4210752/1‑51 (MQ=19)
aGATGAGGTATCCGACCCGGTCAGGAATACCCCcagccagc > 1:4126596/1‑41 (MQ=255)
aGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCAt > 1:3162993/1‑71 (MQ=255)
tGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGa < 1:1856228/70‑1 (MQ=255)
gAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGAcc > 1:2169980/1‑71 (MQ=255)
aGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGt < 1:3951219/58‑1 (MQ=255)
ggTGTCCGAGCCGGTAAGGAATACGCCCAGCCAGCCGAGAAACGGTGagaa > 1:5360147/1‑51 (MQ=19)
|
ACAGATCAGAGACGCCAATTTGTTGTGCTGCGGTGGCTTGCAGCGCGGCGAACAGGGCGTTAGATGAGGTATCCGACCCGGTCAGGAATACCCCCAGCCAGCCGAGGAACGGCGAGAAGAAGGTGAATGCATGACC > minE/2562627‑2562762
|
| 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
