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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,018,853 |
C→T |
28.1% |
T346I (ACT→ATT) |
ssnA → |
predicted chlorohydrolase/aminohydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,018,853 | 0 | C | T | 28.1%
| 95.9
/ 39.0
| 57 | T346I (ACT→ATT) | ssnA | predicted chlorohydrolase/aminohydrolase |
| Reads supporting (aligned to +/- strand): ref base C (19/22); new base T (6/10); total (25/32) |
| Fisher's exact test for biased strand distribution p-value = 7.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCCTTCTTTAAACATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTCTGGAAGCCGGTTACAAAGC > W3110S.gb/3018788‑3018922
|
tGCCTTCTTTAAACATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGATTAACg > 1:3845165/1‑71 (MQ=255)
tGCCTTCTTTAAACATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGATTAACg > 1:228362/1‑71 (MQ=255)
cttcttTAAACATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGt > 1:1097655/1‑70 (MQ=255)
cttTAAACATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTaa < 1:4144940/69‑1 (MQ=255)
tttAAACATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACg > 1:3618630/1‑70 (MQ=255)
tttAAACATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACg > 1:2610348/1‑70 (MQ=255)
aaaCATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACt > 1:4768238/1‑71 (MQ=255)
aaCATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGaa > 1:4838493/1‑68 (MQ=255)
aaCATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACt < 1:2755191/70‑1 (MQ=255)
cATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACtgat < 1:2905836/71‑1 (MQ=255)
cGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGATTAACGGTAACGAACTGATGAGCCGCaa < 1:1434145/70‑1 (MQ=255)
ggtggtCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACtt > 1:2076253/1‑71 (MQ=255)
ggtggtCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACtt > 1:105339/1‑71 (MQ=255)
gtggtCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACttt < 1:4469661/71‑1 (MQ=255)
tggtCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTg < 1:334725/71‑1 (MQ=255)
gtCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAAc < 1:2190220/41‑1 (MQ=255)
tCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGATTaa < 1:1561752/39‑1 (MQ=255)
tCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGATTaa < 1:1463439/39‑1 (MQ=255)
ccGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACtga > 1:3960875/1‑52 (MQ=255)
ccGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACtga > 1:304239/1‑52 (MQ=255)
cGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACg < 1:2329325/45‑1 (MQ=255)
cGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCATCTTTGgcgc > 1:1782115/1‑70 (MQ=255)
cGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGgcgc > 1:4646618/1‑70 (MQ=255)
cGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGgcgc > 1:3103423/1‑70 (MQ=255)
gCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGa < 1:4617280/71‑1 (MQ=255)
cTGTGGCCTGACAGTTTTGCCAAAGCCCTGATTAACGGTAACGa < 1:880134/44‑1 (MQ=255)
gtgGCCTGACAGTTTTGCCAAAGCCCTGATTAACGGTAACGAAc > 1:4624166/1‑44 (MQ=255)
gtgGCCTGACAGTTTTGCCAAAGCCCTGATTAACGGTAACGAAc > 1:1732153/1‑44 (MQ=255)
tgGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAAt < 1:4724382/70‑1 (MQ=255)
gCCTGACAGTTTTGCCAAAGCCCTGACTAACTGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTg < 1:3386002/71‑1 (MQ=255)
gCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAAttt < 1:4977999/70‑1 (MQ=255)
cTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACg < 1:829891/36‑1 (MQ=255)
gACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTg < 1:1870559/55‑1 (MQ=255)
gACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTg < 1:1348996/55‑1 (MQ=255)
aCAGTTTTGCCAAAGCCCTGATTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCtt > 1:3599186/1‑71 (MQ=255)
aCAGTTTTGCCAAAGCCCTGATTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCt < 1:134653/70‑1 (MQ=255)
aCAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCtt < 1:564749/71‑1 (MQ=255)
aCAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCtt < 1:509010/71‑1 (MQ=255)
aCAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCtt < 1:3353505/71‑1 (MQ=255)
aCAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCtt < 1:1488088/71‑1 (MQ=255)
aGTTTTGCCAAAGCCCTGATTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTCt > 1:4548158/1‑71 (MQ=255)
aGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTCt > 1:4972160/1‑71 (MQ=255)
aGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTCt > 1:485071/1‑71 (MQ=255)
ttttGCCAAAGCCCTGATTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGaaa < 1:1316575/58‑1 (MQ=255)
ttttGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTc < 1:4721406/68‑1 (MQ=255)
ttGCCAAAGCCCTGATTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGaaa < 1:455739/56‑1 (MQ=255)
ttGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAAttt > 1:4628143/1‑59 (MQ=255)
ttGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAAttt > 1:2995925/1‑59 (MQ=255)
tGCCAAAGCCCTGACTAACGCTAACGAACTGATGAGCCGCAACTTTGGCGCGaaa < 1:4554571/55‑1 (MQ=255)
ccAAAGCCCTGATTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTCTGGAAGc < 1:1983219/70‑1 (MQ=255)
aaGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTCTGGAAGCCGGt < 1:694190/71‑1 (MQ=255)
aGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAAttt > 1:4284055/1‑52 (MQ=255)
aGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAAttt > 1:706077/1‑52 (MQ=255)
gCCCTGATTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTCTGGAAGCCGGTTa < 1:4177414/71‑1 (MQ=255)
ccTGATTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTCTGGAAGCCGGTTACa < 1:3318998/71‑1 (MQ=255)
aCTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTCTGTAAGCCGGTTATAAAg < 1:3184876/70‑1 (MQ=255)
aCTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTCTGGAAGCCGGTTACAAAGc > 1:4721312/1‑71 (MQ=255)
|
TGCCTTCTTTAAACATCGCGATGCGGGTGGTCCGCTGTGGCCTGACAGTTTTGCCAAAGCCCTGACTAACGGTAACGAACTGATGAGCCGCAACTTTGGCGCGAAATTTGGGCTTCTGGAAGCCGGTTACAAAGC > W3110S.gb/3018788‑3018922
|
| 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
