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 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,142,959 |
A→G |
43.2% |
N468D (AAC→GAC) |
katE → |
hydroperoxidase HPII(III) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,142,959 | 0 | A | G | 43.2%
| 15.1
/ 55.6
| 44 | N468D (AAC→GAC) | katE | hydroperoxidase HPII(III) |
| Reads supporting (aligned to +/- strand): ref base A (16/9); new base G (14/5); total (30/14) |
| Fisher's exact test for biased strand distribution p-value = 5.34e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
ATGCATCGCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGAAACACCGCCGGGGCCGAAACGCGGCGGTTTTGAATCATACCAGGAG > minE/1142899‑1143018
|
atgcatCGCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCcgcg > 1:279439/1‑71 (MQ=255)
tgcatCGCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCcgcgc > 1:1855293/1‑71 (MQ=255)
gatCTCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGa < 1:1735991/70‑1 (MQ=255)
catCGCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCcgcgcg > 1:1959108/1‑70 (MQ=255)
cGCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTTGCCGCGCGaa > 1:1616771/1‑69 (MQ=255)
cGCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGGGCGaaa > 1:1443208/1‑70 (MQ=255)
cGCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGaaa > 1:3835760/1‑70 (MQ=255)
cGCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGaaa > 1:996557/1‑70 (MQ=255)
cGCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGaaa > 1:3292148/1‑70 (MQ=255)
gCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCCGCGCGAAaca > 1:3719756/1‑71 (MQ=255)
aTGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGa < 1:2087644/65‑1 (MQ=255)
aTGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGa < 1:3141700/65‑1 (MQ=255)
aTGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGa < 1:2820918/65‑1 (MQ=255)
tGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGaaa > 1:1898199/1‑66 (MQ=255)
tGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGaaa > 1:3610754/1‑66 (MQ=255)
tGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGaaa > 1:3464603/1‑66 (MQ=255)
tGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGaaa > 1:3258620/1‑66 (MQ=255)
gggATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGAAACAccgcc > 1:308875/1‑71 (MQ=255)
gggATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGAAACAccgcc > 1:3807246/1‑71 (MQ=255)
cGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCTGCGCGaaa > 1:423518/1‑59 (MQ=255)
cGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCCGCGCGaaa > 1:11561/1‑59 (MQ=255)
cGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCCGCGCGaaa > 1:2979903/1‑59 (MQ=255)
cGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCCGCGCGaaa > 1:722689/1‑59 (MQ=255)
cGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCCGCGCGaaa > 1:2611639/1‑59 (MQ=255)
cGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCCGCGCGaaa > 1:4087210/1‑59 (MQ=255)
cGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCCGCGCGAAACACCGCCGGGGc > 1:2858470/1‑71 (MQ=255)
tAACCCGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCCGCGCGAAACACCGCCGGGGCCGAAAc > 1:757722/1‑71 (MQ=255)
tAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGAAac < 1:70716/54‑1 (MQ=255)
aaCCCGGCGAATTACGATCCGAACTCGATTAACGATAACTGGCCGCGCGaaa > 1:4006172/1‑52 (MQ=255)
aaCCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGaaa > 1:2018042/1‑52 (MQ=255)
aaCCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGaaa > 1:2424059/1‑52 (MQ=255)
cccGGCGAATTACGAACCGAACTCGATTAACGATGACTGGCCGCGCGAAACACCGCCGGGGCCGAAAcgcg > 1:624494/1‑71 (MQ=255)
cGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGa < 1:520192/46‑1 (MQ=255)
gAATTACGAACCGAACTCGATTAACGATGACTGGCCGCGCGAAACACCGCCGGGGCCGaa > 1:3098117/1‑60 (MQ=255)
aCGAACCGAACTCGATTAACGATGACTGGCCGCGCGAAACACCGCCGGGGCCGAAACGCGGCGGTTTTGa < 1:1586085/70‑1 (MQ=255)
aCGAACCGAACTCGATTAACGATGACTGGCCGCGCGAAACACCGCCGGGGCCGAAACGCGGCGGTTTTGa < 1:3661704/70‑1 (MQ=255)
aCGAACCGAACTCGATTAACGATGACTGGCCGCGCGAAACACCGCCGGGGCCGAAACGCGGCGGTTTTGa < 1:430379/70‑1 (MQ=255)
aCGAACCGAACTCGATTAACGATGACTGGCCGCGCGAAACACCGCCGGGGCCGAAACGCGGCGGTTTTGa < 1:1681435/70‑1 (MQ=255)
cgaaccgaacTCGATTAACGATGACTGGCCGCGCGAAACACCGCCGGGGCCGAAACGCGGCGGTTTTGa < 1:1119539/69‑1 (MQ=255)
gaaccgaacTCGATTAACGATGACTGGCCGCGCGAAACACCGCCGGGGCCGAAACGCGGCGGTTTTGAAt > 1:1578014/1‑70 (MQ=255)
ccgaacTCGATTAACGATAACTGGCCGCGCGAAACACCGCCGGGGCCGAAACGCGGCGGTTTTGAATCATa < 1:2064891/71‑1 (MQ=255)
cgaacTCGATTAACGATAACTGGCCGCGCGAAACACCGCCGGGTCCGAAACGCGGCGGTTTTGAATCATa < 1:4084596/70‑1 (MQ=255)
cGATTAACGATAACTGGCCGCGCGAAACACCGCCGGGGCCGAAACGCGGCGGTTTTGAATCATACCAGGAg > 1:1578605/1‑71 (MQ=255)
gATAACTGGCCGCGCGAAACACCGCCGGGGCCGAAACGCGGCGGTTTTGAATCATa < 1:2655630/56‑1 (MQ=255)
|
ATGCATCGCATGGGGATCGACACTAACCCGGCGAATTACGAACCGAACTCGATTAACGATAACTGGCCGCGCGAAACACCGCCGGGGCCGAAACGCGGCGGTTTTGAATCATACCAGGAG > minE/1142899‑1143018
|
| 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
