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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,225,730 |
G→A |
31.1% |
T117I (ACT→ATT) |
arpA ← |
regulator of acetyl CoA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,225,730 | 0 | G | A | 31.1%
| 60.1
/ 35.5
| 45 | T117I (ACT→ATT) | arpA | regulator of acetyl CoA synthetase |
| Reads supporting (aligned to +/- strand): ref base G (13/18); new base A (4/10); total (17/28) |
| Fisher's exact test for biased strand distribution p-value = 5.13e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
TAAGTTTAATTCTTGGGAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCAAATATTGGGGCAATGGTTTGAGTA > W3110S.gb/4225662‑4225795
|
tAAGTTTAATTCTTGGGAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAgt < 1:628380/70‑1 (MQ=255)
tAAGTTTAATTCTTGGGAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAatg > 1:185512/1‑71 (MQ=255)
aaGTTTAATTCTTGGGAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAgtg > 1:2544938/1‑70 (MQ=255)
aGTTTAATTCTTGGGAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTc > 1:2615296/1‑71 (MQ=255)
aTTCTTGGGAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGc < 1:329055/70‑1 (MQ=255)
aTTCTTGGGAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAATGTCTGAGCg < 1:3371002/71‑1 (MQ=255)
ttCTTGGGAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGt > 1:290576/1‑71 (MQ=255)
cTTGGGAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGtt > 1:803324/1‑70 (MQ=255)
gggAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGa < 1:3794895/69‑1 (MQ=255)
gggAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGa < 1:363531/69‑1 (MQ=255)
aaTTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAgg > 1:308714/1‑68 (MQ=255)
aaTTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTa > 1:2757958/1‑70 (MQ=255)
ttctttttctttTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAATGTCTGAGCGTTGAGGTaa < 1:312161/69‑1 (MQ=255)
ctttttcttttCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAATGTCTGAGCGTTGAGGTAAAAtt > 1:2038175/1‑71 (MQ=255)
ctttttcttttCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAATGTCTGAGCGTTGAGGTAAAAtt > 1:151417/1‑71 (MQ=255)
tttcttttctATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAAtt < 1:858914/68‑1 (MQ=255)
tttcttttctATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTc < 1:2979715/70‑1 (MQ=255)
tttcttttctATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTc < 1:3536959/70‑1 (MQ=255)
tttcttttctATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTc < 1:3677148/70‑1 (MQ=255)
tttcttttctATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTc < 1:152103/70‑1 (MQ=255)
tttcttttctATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAATGTCTGAGCGTTGAGGTAAAAtt < 1:3088856/68‑1 (MQ=255)
tttcttttctATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAATGTCTGAGCGTTGAGGTAAAATTTc < 1:3214364/70‑1 (MQ=255)
tctATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCATTAgg < 1:1352406/70‑1 (MQ=255)
tCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGGTGAGGTAAAATTTCCATTAGGTAt < 1:3778798/69‑1 (MQ=255)
tGATTTTAGGTTTAATTCTTGTTTATCAAGAgtgt > 1:3951455/1‑35 (MQ=255)
tGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTAtttt > 1:1599208/1‑70 (MQ=255)
gATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCAt > 1:2820165/1‑59 (MQ=255)
aTTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTc > 1:2693310/1‑70 (MQ=255)
aTTTTAGGTTTAATTCTTGTTTATCAAGAATGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTc > 1:3880123/1‑70 (MQ=255)
aTTTTAGGTTTAATTCTTGTTTATCAAGAATGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCa < 1:666772/71‑1 (MQ=255)
ttAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCaaa < 1:2475838/70‑1 (MQ=255)
ttAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCaaa < 1:3548051/70‑1 (MQ=255)
ggTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCATTAGTTATTTTTCAAatat < 1:1157355/70‑1 (MQ=255)
ttAATTCTTGTTTATCAAGAATGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCAAATATTggg > 1:2464148/1‑71 (MQ=255)
ttCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTaaa < 1:908181/37‑1 (MQ=255)
ttCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTaaa < 1:3544758/37‑1 (MQ=255)
ttCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTaaa < 1:3215793/37‑1 (MQ=255)
cTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAAt > 1:3621997/1‑37 (MQ=255)
cTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAAt > 1:2952638/1‑37 (MQ=255)
cTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCa > 1:2708261/1‑42 (MQ=255)
cTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCAAATATTGGGGCAATg > 1:3058501/1‑71 (MQ=255)
cTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCAAATATTGGGGCAATg > 1:1842285/1‑71 (MQ=255)
tttATCAAGAATGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCAAATATTGGGGCAATGGttt < 1:1929218/71‑1 (MQ=255)
tCAAGAATGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCAAATATTGGGGCAATGGTTTGAGt < 1:3073521/71‑1 (MQ=255)
cAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCAAATATTGGGGc < 1:1691903/58‑1 (MQ=255)
aaGAGTGTCTGAGCGTTGAGTTAAAATTTCCATTAGGTATTTTTCAAATATTgggtc < 1:3497958/57‑3 (MQ=255)
aaGAATGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCAAATATTGGGGCAATGGTTTGAGTa < 1:3532523/70‑1 (MQ=255)
aaGAATGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCAAATATTGGGGCAATGGTTTGAGTa < 1:2515142/70‑1 (MQ=255)
aaGAATGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCAAATATTGGGGCAATGGTTTGAGTa < 1:1127229/70‑1 (MQ=255)
|
TAAGTTTAATTCTTGGGAATTCTTTTTCTTTTCTATCTGATTTTAGGTTTAATTCTTGTTTATCAAGAGTGTCTGAGCGTTGAGGTAAAATTTCCATTAGGTATTTTTCAAATATTGGGGCAATGGTTTGAGTA > W3110S.gb/4225662‑4225795
|
| 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
