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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,911,643 |
A→G |
57.4% |
L184L (TTG→CTG) |
thyA ← |
thymidylate synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,911,643 | 0 | A | G | 57.4%
| 25.3
/ 54.3
| 75 | L184L (TTG→CTG) | thyA | thymidylate synthetase |
| Reads supporting (aligned to +/- strand): ref base A (7/25); new base G (26/17); total (33/42) |
| Fisher's exact test for biased strand distribution p-value = 1.04e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.30e-01 |
TCGCCACCGGTCCAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTCACAGGAGCGCTG > minE/1911579‑1911700
|
tCGCCACCGGTCCAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAAc > 1:2263060/1‑69 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:1055930/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:991476/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:887183/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:855503/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:581154/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:554783/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:389823/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:3403750/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:329587/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:3186362/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:3059240/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:2996489/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:2439183/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:1933146/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:1186381/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:1856346/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:1089503/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:124583/69‑1 (MQ=255)
ccAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGc < 1:1744828/69‑1 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAAcgc > 1:53653/1‑55 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCt > 1:145855/1‑61 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:3038999/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:2654296/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:515943/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:2885685/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:438246/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:1742349/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:3003066/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:3344377/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:3399407/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:3156390/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:3170550/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:3288111/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:57879/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:1022199/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:1175127/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:2490957/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:7202/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:2313026/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:2278318/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:1075516/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:22576/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:2123292/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:2081541/1‑67 (MQ=255)
cAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAGTAACGCGTAGCTGGCAAt > 1:2038104/1‑67 (MQ=255)
gATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAgg < 1:260018/68‑1 (MQ=255)
gATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAgg < 1:1858705/68‑1 (MQ=255)
gATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAgg < 1:3175695/68‑1 (MQ=255)
gATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAgg < 1:1798452/68‑1 (MQ=255)
gATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAgg < 1:2748990/68‑1 (MQ=255)
aTCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGaa < 1:2328934/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:522314/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:3066113/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:1426607/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:185740/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:181693/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:2136197/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:249539/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:2610362/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:2775021/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:2824048/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:2868652/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:2936344/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:3101642/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:3315550/69‑1 (MQ=255)
ctgctgCGCCATCATATGCACCAATAACGCGTATCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGt > 1:543863/1‑68 (MQ=255)
tgctgcGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:526036/68‑1 (MQ=255)
tgctgcGCCATCATATGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:2454815/68‑1 (MQ=255)
atatGCACCAGTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTc < 1:817953/56‑1 (MQ=255)
atatGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTCACAGGAGCGCTg > 1:530141/1‑68 (MQ=255)
atatGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTCACAGGAGCGCTg > 1:496938/1‑68 (MQ=255)
atatGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTCACAGGAGCGCTg > 1:566015/1‑68 (MQ=255)
atatGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTCACAGGAGCGCTg > 1:619990/1‑68 (MQ=255)
atatGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTCACAGGAGCGCTg > 1:1409552/1‑68 (MQ=255)
aaTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAg < 1:551801/42‑1 (MQ=255)
aaTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAg < 1:2654113/42‑1 (MQ=255)
aaTAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAg < 1:1612755/42‑1 (MQ=255)
|
TCGCCACCGGTCCAGACAAAATCACCCACTTCCAGATCGCACTGCTGCGCCATCATATGCACCAATAACGCGTAGCTGGCAATGTTGAACGGCAGGCCGAGGAAGACGTCACAGGAGCGCTG > minE/1911579‑1911700
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
