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 |
1,450,176 |
A→G |
66.2% |
L253L (CTA→CTG) |
atoC → |
fused response regulator of ato opeon, in two‑component system with AtoS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,450,176 | 0 | A | G | 66.2%
| 41.1
/ 28.2
| 56 | L253L (CTA→CTG) | atoC | fused response regulator of ato opeon, in two‑component system with AtoS |
| Reads supporting (aligned to +/- strand): ref base A (8/11); new base G (26/11); total (34/22) |
| Fisher's exact test for biased strand distribution p-value = 4.95e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
ATTATTTGAACGAGCCAACGAAGGTACTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCATCAGACCA > minE/1450110‑1450240
|
attattTGAACGAGCCAACGAAGGTACTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGtactac > 1:649542/1‑68 (MQ=255)
attattTGAACGAGCCAACGAAGGTACTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGTACTACa > 1:1941169/1‑69 (MQ=255)
attattTGAACGAGCCAACGAAGGTACTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGTACTACa > 1:1155503/1‑69 (MQ=255)
cAACGAAGGTACTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACg < 1:2887980/69‑1 (MQ=255)
aaGGTACTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGTACTACAAGCCAAAt > 1:1525087/1‑57 (MQ=255)
aCTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACa > 1:1941243/1‑68 (MQ=255)
aCTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACa > 1:1337969/1‑68 (MQ=255)
aCTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACa > 1:657925/1‑68 (MQ=255)
aCTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACa > 1:1734185/1‑68 (MQ=255)
aCTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACa > 1:3435191/1‑68 (MQ=255)
cgacgaAATTGGCGAAATGCCGCTGTTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:2055339/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:3358287/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:575331/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:497006/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:2322474/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:3094802/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:3179195/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:2737874/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:2790609/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:2873910/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:2908188/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:2978434/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:1354389/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:173102/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:97698/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:1420513/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:1516857/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:1808695/1‑68 (MQ=39)
cgacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAt > 1:811498/1‑68 (MQ=39)
gacgaAATTGGGGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAtt > 1:2306005/1‑68 (MQ=39)
gacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAtt > 1:80111/1‑68 (MQ=39)
gacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAtt > 1:1288381/1‑68 (MQ=39)
gacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAtt > 1:1398607/1‑68 (MQ=39)
gacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAtt > 1:3201237/1‑68 (MQ=39)
gacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAtt > 1:1722745/1‑68 (MQ=39)
gacgaAATTGGCGAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAAtt > 1:713037/1‑68 (MQ=39)
cgaAATTGGCGAAATGCCGCTGGTACTATAAACCAAATTACTACGCATTCTACAGGAACGGGAATTTg < 1:1770673/68‑1 (MQ=255)
cgaAATTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTg < 1:2639238/68‑1 (MQ=255)
aaTTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACg < 1:2536322/69‑1 (MQ=255)
aTTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACgg < 1:736194/69‑1 (MQ=255)
aTTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACgg < 1:258645/69‑1 (MQ=255)
aTTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACgg < 1:2522916/69‑1 (MQ=255)
aTTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACgg < 1:2101434/69‑1 (MQ=255)
gAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAATTTGAACGGATTgg < 1:2498925/68‑1 (MQ=255)
gAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAATTTGAACGGATTgg < 1:1716491/68‑1 (MQ=255)
gAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAATTTGAACGGATTgg < 1:245377/68‑1 (MQ=255)
gAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAATTTGAACGGATTgg < 1:968904/68‑1 (MQ=255)
gAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAATTTGAACGGATTgg < 1:1770064/68‑1 (MQ=255)
gAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAATTTGAACGGATTgg < 1:880609/68‑1 (MQ=255)
gAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAATTTGAACGGATTgg < 1:1820421/68‑1 (MQ=255)
gAAATGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAATTTGAACGGATTgg < 1:1576882/68‑1 (MQ=255)
aaaTGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAATTTGAACGGATTgg < 1:20985/67‑1 (MQ=255)
aaaTGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAATTTGAACGGATTgg < 1:433910/67‑1 (MQ=255)
aaTGCCGCTGGTACTGCAAGCCAAATTACTACGCATTCTGCAGGAACGGGAATTTGAACGGATTgg < 1:808940/66‑1 (MQ=255)
ccGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCAt < 1:1901966/69‑1 (MQ=255)
ccGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCAt < 1:744592/69‑1 (MQ=255)
ccGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCAt < 1:1659157/69‑1 (MQ=255)
actacAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCATCAGAc > 1:2081799/1‑66 (MQ=255)
actacAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCATCAGACCa > 1:1216601/1‑68 (MQ=255)
actacAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCATCAGACCa > 1:3018968/1‑68 (MQ=255)
actacAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCATCAGACCa > 1:641836/1‑68 (MQ=255)
actacAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCATCAGACCa > 1:490052/1‑68 (MQ=255)
actacAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCATCAGACCa > 1:347517/1‑68 (MQ=255)
actacAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCATCAGACCa > 1:3325253/1‑68 (MQ=255)
|
ATTATTTGAACGAGCCAACGAAGGTACTCTGCTCCTCGACGAAATTGGCGAAATGCCGCTGGTACTACAAGCCAAATTACTACGCATTCTACAGGAACGGGAATTTGAACGGATTGGCGGCCATCAGACCA > minE/1450110‑1450240
|
| 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
