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 |
2,727,940 |
T→C |
60.5% |
F59F (TTT→TTC) |
kefB → |
potassium:proton antiporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,727,940 | 0 | T | C | 60.5%
| 29.2
/ 45.8
| 43 | F59F (TTT→TTC) | kefB | potassium:proton antiporter |
| Reads supporting (aligned to +/- strand): ref base T (9/8); new base C (10/16); total (19/24) |
| Fisher's exact test for biased strand distribution p-value = 5.31e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGGCAGGGATTGCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTTTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTCCAAACTTTG > minE/2727872‑2728005
|
cTGTCAGGGATTGCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACtttt < 1:389767/70‑1 (MQ=255)
cTGGCAGGGATTGCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTTTc < 1:748244/71‑1 (MQ=255)
gCAGGGATTGCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTTTCgg < 1:497290/70‑1 (MQ=255)
aGGGATTGCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTTTCGGAAc < 1:202506/71‑1 (MQ=255)
aGGGATTGCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCGGAAc < 1:3426712/71‑1 (MQ=255)
aGGGATTGCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCGGAAc > 1:2151201/1‑71 (MQ=255)
gggATTGCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCGGAACt < 1:2973771/71‑1 (MQ=255)
ggATTGCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCGGAACTc > 1:1236214/1‑71 (MQ=255)
tGCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCGGAACTCGGCg > 1:645429/1‑71 (MQ=255)
gCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTTTCGGAACTCGGCg < 1:3365483/70‑1 (MQ=255)
gCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCGGAACTCGGCg < 1:1364845/70‑1 (MQ=255)
tGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCGGAACTCGGCGTGGTAt > 1:135535/1‑71 (MQ=255)
gCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTTTCGGAACTCGGCGTGGTATTc > 1:3681987/1‑71 (MQ=255)
gggggCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTTTCGGAACTCGGCGTGGTATTCCTGATg > 1:925179/1‑71 (MQ=255)
gggggCTAGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTTTCGGAACTCGGCGTGGTATTCCTGATg > 1:349930/1‑71 (MQ=255)
ggggCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTTTCGGAACTCGGCGTGGTATTCCTGATGt < 1:102285/71‑1 (MQ=255)
ggCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCgg < 1:836928/45‑1 (MQ=255)
tGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCGGAACTCgg < 1:3264345/49‑1 (MQ=255)
tGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCGGAACTCgg < 1:2705634/49‑1 (MQ=255)
tGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCGGAACTCgg < 1:1216483/49‑1 (MQ=255)
ggTTTATTAGCGACGTCGATGAGATCCTCCACTTCTCGGAACTCGGCGTGGTATTCCTGATGTTTatcatc < 1:2586353/71‑1 (MQ=255)
tttATTAGCGACGTCGATGAGATCCTCCACTTTTCGGAACTCgg < 1:1052473/44‑1 (MQ=255)
tttATTAGCGACGTCGATGAGATCCTCCACTTTTCGGAACTCgg < 1:3225462/44‑1 (MQ=255)
tattaGCGACGTCGATGAGATCCTCCACTTTTCGGAAc > 1:2668325/1‑38 (MQ=255)
tattaGCGACGTCGATGAGATCCTCCACTTCTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGcc > 1:904082/1‑71 (MQ=255)
ttaGCGACGTCGATGAGATCCTCCACTTCTAGCAACTCGGCGTGGTATTCCTg > 1:2341479/1‑53 (MQ=255)
taGCGACGTCGATGAGATCCTCCACTTTTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCtt > 1:2331147/1‑70 (MQ=255)
taGCGACGTCGATGAGATCCTCCACTTTTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCtt > 1:3015455/1‑70 (MQ=255)
taGCGACGTCGATGAGATCCTCCACTTCTCGGAACTCGGCg < 1:2535145/41‑1 (MQ=255)
taGCGACGTCGATGAGATCCTCCACTTCTCGGAACTCGGCGTgg > 1:2371195/1‑44 (MQ=255)
taGCGACGTCGATGAGATCCTCCACTTCTCGGAACTCGGCGTgg > 1:1837547/1‑44 (MQ=255)
aCGTCGATGAGATCCTCCACTTCTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTg < 1:1786630/71‑1 (MQ=255)
gTCGATGAGATCCTGCACTTCTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGaa < 1:2905342/71‑1 (MQ=255)
gTCGATGAGATCCTCCACTTTTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGa > 1:3593491/1‑70 (MQ=255)
tCGATGAGATCCTCCACTTCTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCtt > 1:3212610/1‑62 (MQ=255)
gATGAGATCCTCCACTTCTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATc < 1:1910112/70‑1 (MQ=255)
agaTCCTCCACTTTTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTc > 1:2972636/1‑70 (MQ=255)
gaTCCTCCACTTCTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTCCa < 1:2927323/71‑1 (MQ=255)
cctccACTTTTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTCCAAAc > 1:1772147/1‑71 (MQ=255)
cACTTTTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTCCAAACtt < 1:986356/69‑1 (MQ=255)
cACTTCTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTCCAAACtt < 1:2306706/69‑1 (MQ=255)
cACTTCTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTCCAAACtt < 1:1180362/69‑1 (MQ=255)
cACTTCTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCATCCAAACttt < 1:2271121/70‑1 (MQ=255)
cTTCTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTCCAAACTTTg > 1:2679769/1‑69 (MQ=255)
tttCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTCCaaa > 1:2216570/1‑62 (MQ=255)
tttCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTCCaaa > 1:2199057/1‑62 (MQ=255)
tttCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTCCaaa > 1:944740/1‑62 (MQ=255)
|
CTGGCAGGGATTGCAATTGGCCCGTGGGGGCTGGGGTTTATTAGCGACGTCGATGAGATCCTCCACTTTTCGGAACTCGGCGTGGTATTCCTGATGTTTATCATCGGCCTTGAGTTGAATCCCTCCAAACTTTG > minE/2727872‑2728005
|
| 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
