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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,208,832 |
A→G |
13.6% |
H126R (CAC→CGC) |
yrdD → |
predicted DNA topoisomerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,208,832 | 0 | A | G | 13.6%
| 106.9
/ 10.5
| 44 | H126R (CAC→CGC) | yrdD | predicted DNA topoisomerase |
| Reads supporting (aligned to +/- strand): ref base A (18/20); new base G (3/3); total (21/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
ATTACATGCCCCCAATGTCGGACGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAACCCATAGCTGGAGAATGCCCTG > W3110S.gb/4208765‑4208900
|
aTTACATGCCCCCAATGTCGGACGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCActc > 1:1196568/1‑71 (MQ=255)
tACATGCCCCCAATGTCGGACGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCtt > 1:872611/1‑71 (MQ=255)
tGCCCCCAATGTCGGACGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGa > 1:966117/1‑71 (MQ=255)
cccccAATGTCGGACGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATc > 1:1946295/1‑71 (MQ=255)
tCGGACGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCGCTCTTGTGATCGCTACCCgg < 1:464851/71‑1 (MQ=255)
tCGGACGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGAt > 1:560593/1‑61 (MQ=255)
tCGGACGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCgg < 1:289264/71‑1 (MQ=255)
cGGACGGGCCATCTGGTCCAGCGCCTCTCCCGTTATGGCAAAACATTTCGCTCTTGTGATCg > 1:2423516/1‑62 (MQ=255)
gACGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTtgt < 1:1442887/55‑1 (MQ=255)
gACGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAgt < 1:652923/71‑1 (MQ=255)
cGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGa > 1:1054458/1‑55 (MQ=255)
ggCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCgg < 1:2321401/64‑1 (MQ=255)
tCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCGCTCTtgtg < 1:1016875/47‑1 (MQ=255)
tCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCGCTCTTGTGATCGCTa < 1:969397/54‑1 (MQ=255)
tGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCGCTCTTGTGATCGCTACCCGGAGTGTCAATTTGc > 1:475675/1‑70 (MQ=255)
gTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCgg < 1:2265023/55‑1 (MQ=255)
gTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGc < 1:1391599/68‑1 (MQ=255)
tCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCAtt < 1:1153467/71‑1 (MQ=255)
tCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCAtt < 1:543820/71‑1 (MQ=255)
tCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCAtt < 1:2444926/71‑1 (MQ=255)
cAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTa < 1:1661609/70‑1 (MQ=255)
gcgcCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGc < 1:2797904/63‑1 (MQ=255)
gccgcTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACtt > 1:1922077/1‑70 (MQ=255)
cccGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAAcc > 1:449525/1‑70 (MQ=255)
ccGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAACCCa < 1:2389376/71‑1 (MQ=255)
ttATGGCAAAACATTTCACTCTTGTGATCGCTACCCg < 1:2280521/37‑1 (MQ=255)
tATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCaa > 1:499813/1‑62 (MQ=255)
aTGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAg > 1:2085249/1‑38 (MQ=255)
aTGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTg > 1:870215/1‑48 (MQ=255)
tGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAg > 1:1823471/1‑37 (MQ=255)
gCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAAcc < 1:1426117/61‑1 (MQ=255)
gCAAAACATTTCACTCTTGTGATCGCTAACCGGAGTGTCAATTTGCCATTAACTCCAAAcc < 1:574596/61‑1 (MQ=255)
cAAAACATTTCGCTCTTGTGATCGCTACCCGGAGTGTCAAtt > 1:2692951/1‑42 (MQ=255)
cAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAACCCATAGCTGgag < 1:1172840/71‑1 (MQ=255)
cAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAACCCATAGCTGgag < 1:1503266/71‑1 (MQ=255)
cAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAACCCATAGCTGgag < 1:2339788/71‑1 (MQ=255)
aCATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTaa > 1:2630917/1‑47 (MQ=255)
aCATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAAc > 1:654793/1‑55 (MQ=255)
cATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAAc > 1:1927414/1‑54 (MQ=255)
tttCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAACCCATAGCTGgag < 1:1211470/64‑1 (MQ=255)
tCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAACCCATAGCTGGAGAATGCCCt > 1:1806457/1‑70 (MQ=255)
tCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAACCCATAGCTGGAGAATGCCCt > 1:2062590/1‑70 (MQ=255)
cACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAACCCATAGCTGGAGAATGCCCt > 1:590155/1‑69 (MQ=255)
cACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAACCCATAGCTGGAGAATGCCCTg < 1:1224801/70‑1 (MQ=255)
|
ATTACATGCCCCCAATGTCGGACGGGCCATCTGGTCCAGCGCCGCTCCCGTTATGGCAAAACATTTCACTCTTGTGATCGCTACCCGGAGTGTCAATTTGCCATTAACTTCAAACCCATAGCTGGAGAATGCCCTG > W3110S.gb/4208765‑4208900
|
| 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
