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 |
667,631 |
A→G |
57.9% |
E323E (GAA→GAG) |
uup → |
fused predicted transporter subunits and ATP‑binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 667,631 | 0 | A | G | 57.9%
| 20.0
/ 45.9
| 64 | E323E (GAA→GAG) | uup | fused predicted transporter subunits and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base A (17/10); new base G (22/15); total (39/25) |
| Fisher's exact test for biased strand distribution p-value = 8.01e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01 |
GGGTACCGCAAAGATGCAGGTGGAAGAGGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTA > minE/667568‑667691
|
gggTACCGCAAAGATGCAGGTGGAAGAGGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACg < 1:1140726/68‑1 (MQ=255)
gggTACCGCAAAGATGCAGGTGGAAGAGGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACg < 1:3416683/68‑1 (MQ=255)
gggTACCGCAAAGATGCAGGTGGAAGAGGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACg < 1:2611050/68‑1 (MQ=255)
gggTACCGCAAAGATGCAGGTGGAAGAGGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACg < 1:2544094/68‑1 (MQ=255)
gggTACCGCAAAGATGCAGGTGGAAGAGGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACg < 1:2482101/68‑1 (MQ=255)
gggTACCGCAAAGATGCAGGTGGAAGAGGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACg < 1:205043/68‑1 (MQ=255)
gCAAAGATGCAGGTGGAAGAGGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCt > 1:425307/1‑67 (MQ=255)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:2500714/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:983622/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:485337/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:329933/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:3006710/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:3006613/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:2350271/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:2247999/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:1791083/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:1698389/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:1287706/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:1566675/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:1246665/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCCAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:1241428/69‑1 (MQ=39)
aTGCAGGTGGAAGAAGCAAGCCGCTCCGGTAAGATCGTTTTCGAAATGGAGGACGTTTGCTACCAGGtt < 1:724670/69‑1 (MQ=38)
ggAAGAGGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTa > 1:1966601/1‑68 (MQ=255)
ggAAGAGGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTa > 1:1784573/1‑68 (MQ=255)
agagGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACg < 1:724321/44‑1 (MQ=255)
ggCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTa > 1:121774/1‑48 (MQ=255)
ggCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCAACt > 1:1829579/1‑69 (MQ=255)
ggCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCAACt > 1:3266431/1‑69 (MQ=255)
ggCCAGCCGCTCCGGTAAAATCGTTTTCGAAAAGGAAGACGTTTGCTAcc > 1:1503716/1‑50 (MQ=255)
ccGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCa > 1:2925530/1‑55 (MQ=255)
ccGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCa > 1:798473/1‑55 (MQ=255)
ccGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCa > 1:3055668/1‑55 (MQ=255)
ccGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCa > 1:804994/1‑55 (MQ=255)
ccGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCa > 1:1938419/1‑55 (MQ=255)
ccGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCa > 1:2484191/1‑55 (MQ=255)
aTCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCAAc > 1:1935795/1‑49 (MQ=255)
aTCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCAACTGGTGAAAGATTTTTCTg > 1:1118874/1‑67 (MQ=255)
aTCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCAACTGGTGAAAGATTTTTCTg > 1:891119/1‑67 (MQ=255)
cGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCa > 1:1298011/1‑69 (MQ=255)
gTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAGGCAACTGGTGAAAGATTTTTCTGCCCAg < 1:188906/69‑1 (MQ=255)
gTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAg < 1:3273113/69‑1 (MQ=255)
ttttCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAg < 1:1053764/68‑1 (MQ=255)
aaaggaggaCGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:429647/4‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGccct > 1:807019/1‑59 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCt > 1:2224198/1‑66 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:1375074/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:2714788/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:262377/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:820423/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:1591768/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:762017/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:754672/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:1895672/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:2657512/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:553308/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:500713/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:1179233/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:2679999/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:412276/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:1579788/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:1453056/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:1264616/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:2705660/1‑67 (MQ=255)
aaTGGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:2993379/1‑67 (MQ=255)
aaTAGAGGACGTTTGCTACCAGGTTGACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTa > 1:2412452/1‑67 (MQ=255)
|
GGGTACCGCAAAGATGCAGGTGGAAGAGGCCAGCCGCTCCGGTAAAATCGTTTTCGAAATGGAAGACGTTTGCTACCAGGTTAACGGTAAGCAACTGGTGAAAGATTTTTCTGCCCAGGTTCTA > minE/667568‑667691
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
