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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,164,775 |
C→T |
63.2% |
A534T (GCA→ACA) |
ygiS ← |
predicted transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,164,775 | 0 | C | T | 63.2%
| 45.9
/ 60.0
| 57 | A534T (GCA→ACA) | ygiS | predicted transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (13/8); new base T (14/22); total (27/30) |
| Fisher's exact test for biased strand distribution p-value = 1.08e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.73e-01 |
TCACAGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCAACGTA > W3110S.gb/3164710‑3164841
|
tCACAGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCtt < 1:1015260/69‑1 (MQ=255)
tCACAGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCtt < 1:1890891/69‑1 (MQ=255)
tCACAGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCtt < 1:1682553/69‑1 (MQ=255)
cacaGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTg < 1:1025088/69‑1 (MQ=255)
acaGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGa > 1:1016204/1‑69 (MQ=255)
acaGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCTTGa < 1:1525563/69‑1 (MQ=255)
acaGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCTTGa > 1:75943/1‑69 (MQ=255)
aaaGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGa > 1:822905/3‑69 (MQ=255)
agaTCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATAc < 1:2447668/69‑1 (MQ=255)
gaTCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATAc < 1:1843966/68‑1 (MQ=255)
aGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTg < 1:1177539/67‑1 (MQ=255)
gcgcCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAg < 1:215735/69‑1 (MQ=255)
ccgGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATaa < 1:299057/69‑1 (MQ=255)
ccgGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATa < 1:3095095/68‑1 (MQ=255)
cgGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATaa < 1:2476280/68‑1 (MQ=255)
cGTGCTCTGACGGCGATAAAGGCATCAATGTGTCtt > 1:1807905/1‑36 (MQ=37)
cGTGCTCCGACGGCGATAAAGGCATCAATGTGTCtt > 1:2582802/1‑36 (MQ=255)
tGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTggg < 1:2805813/69‑1 (MQ=255)
cTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTgggg > 1:942670/1‑68 (MQ=255)
cTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTgggg > 1:2858721/1‑68 (MQ=255)
cTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTgggg > 1:1280526/1‑68 (MQ=255)
tCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTgggg > 1:2908682/1‑67 (MQ=255)
ccGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAt < 1:3299304/68‑1 (MQ=255)
ccGACGGCGATAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAtt > 1:1830724/1‑69 (MQ=255)
ccGACGGCGATAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAtt > 1:1750155/1‑69 (MQ=255)
ccGACGGCGATAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAtt > 1:1745798/1‑69 (MQ=255)
cGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACa < 1:1568186/54‑1 (MQ=255)
cGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACa < 1:3511916/54‑1 (MQ=255)
cGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACa < 1:1733602/54‑1 (MQ=255)
tAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTg < 1:3444932/39‑1 (MQ=255)
aaaGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACa < 1:1770215/44‑1 (MQ=255)
aaaGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaa < 1:2113437/69‑1 (MQ=255)
aaaGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaa < 1:199050/69‑1 (MQ=255)
aaGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaaa > 1:3275267/1‑69 (MQ=255)
aaGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaaa > 1:1118764/1‑69 (MQ=255)
aaGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaaa < 1:499123/69‑1 (MQ=255)
aaGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaaa < 1:1995966/69‑1 (MQ=255)
aaGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaaa > 1:980253/1‑69 (MQ=255)
aGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaaa < 1:236996/68‑1 (MQ=255)
cAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGcc > 1:3396582/1‑68 (MQ=255)
cAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGcc > 1:3400777/1‑68 (MQ=255)
aaTGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCaa > 1:2219935/1‑69 (MQ=255)
aaTGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCa > 1:3719812/1‑68 (MQ=255)
aaTGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCaa > 1:3300251/1‑69 (MQ=255)
aaTGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCaa > 1:11999/1‑69 (MQ=255)
aaTGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCaa > 1:3461785/1‑69 (MQ=255)
aaTGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCaa > 1:2035514/1‑69 (MQ=255)
aaTGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCaa > 1:433219/1‑69 (MQ=255)
tgtgTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATg < 1:1563431/50‑1 (MQ=255)
tgtgTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATg < 1:1733564/50‑1 (MQ=255)
gtgCCTTGATATACAACTCTTTGCTGTAGACATAATcc < 1:1130798/38‑1 (MQ=255)
gtgCCTTGATATACAACTCTTTGCTGTAGACATAATcc < 1:2753114/38‑1 (MQ=255)
gtgCCTTGATATACAACTCTTTGCTGTAGACATAATcc < 1:3304839/38‑1 (MQ=255)
gtgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGa > 1:2521399/1‑44 (MQ=255)
gtgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAt > 1:3440666/1‑45 (MQ=255)
gtgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAt > 1:3436375/1‑45 (MQ=255)
tgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCAACGTa < 1:1432060/69‑1 (MQ=255)
|
TCACAGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCAACGTA > W3110S.gb/3164710‑3164841
|
| 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
