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 |
2,576,572 |
T→C |
59.0% |
E509E (GAA→GAG) |
treF ← |
cytoplasmic trehalase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,576,572 | 0 | T | C | 59.0%
| 31.4
/ 55.3
| 78 | E509E (GAA→GAG) | treF | cytoplasmic trehalase |
| Reads supporting (aligned to +/- strand): ref base T (25/7); new base C (33/13); total (58/20) |
| Fisher's exact test for biased strand distribution p-value = 6.04e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01 |
CCCATCCTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGATTTCAT > minE/2576506‑2576639
|
cccATCCTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTAttttt > 1:2342235/1‑68 (MQ=255)
cccATCCTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTc > 1:656791/1‑69 (MQ=255)
cccATCCTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTc > 1:1147399/1‑69 (MQ=255)
cccATCCTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTc > 1:2306083/1‑69 (MQ=255)
cccATCCTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTc > 1:1306049/1‑69 (MQ=255)
cccATCCTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTc > 1:272276/1‑69 (MQ=255)
cccATCCTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTc > 1:1410695/1‑69 (MQ=255)
cccATCCTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTc > 1:2777622/1‑69 (MQ=255)
cccATCCTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTc > 1:1468403/1‑69 (MQ=255)
cccATCCTGCAACGGATACTCGCCACCGCCGCATTCGCGGGGAACACCATCGGCAATATGGTATTTTTc > 1:1777096/1‑69 (MQ=255)
cTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAg > 1:1060108/1‑69 (MQ=255)
cTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAg > 1:1211696/1‑69 (MQ=255)
cTGCAACGGATACTCGCCACCGCCCCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAg > 1:3128782/1‑69 (MQ=255)
aCGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTtgt > 1:1054682/1‑69 (MQ=255)
aCGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTtgt > 1:1804110/1‑69 (MQ=255)
aCGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTtgt > 1:686454/1‑69 (MQ=255)
aCGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTtgt > 1:1097422/1‑69 (MQ=255)
aCGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTtgt > 1:3224033/1‑69 (MQ=255)
aCGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTtgt > 1:2453582/1‑69 (MQ=255)
aCGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTtgt > 1:3068340/1‑69 (MQ=255)
aCGGATACTCGCAACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTtgt > 1:2683252/1‑69 (MQ=255)
gCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTTGTGCTGTTCCa > 1:1415716/1‑68 (MQ=255)
gCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTTGTGCTGTTCCa > 1:2322736/1‑68 (MQ=255)
gCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTTGTGCTGTTCCa > 1:2788540/1‑68 (MQ=255)
gCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTTGTGCTGTTCCa > 1:2309282/1‑68 (MQ=255)
aCCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTTGTGCTGTTCCAGATa < 1:1431682/69‑1 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:356047/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:2341256/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:3235741/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:2508428/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:3154741/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:371108/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:2020088/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:253375/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:2538597/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:2588974/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:670759/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:1698174/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:696474/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:792734/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:3120535/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:1363868/1‑60 (MQ=255)
gccgccTTCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTc > 1:3071897/1‑60 (MQ=255)
gccgccATCGCGAGGAACACCATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGtt > 1:734927/1‑59 (MQ=255)
gccTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTTGTGCTGTTCCAGATAGAACTg < 1:1802375/69‑1 (MQ=255)
ggggAACACCATCGGCAATATGGTATTTTTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCAcc < 1:587513/68‑1 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGt > 1:1103302/1‑39 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:2523761/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:2990180/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:3245772/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:399126/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:1955167/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:1941810/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:63510/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:1806647/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:1521261/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:846406/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:1429699/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:1207808/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:1177298/1‑67 (MQ=255)
ccATCGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTca > 1:1109511/1‑67 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:313124/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:472131/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:3128407/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:2473682/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:2868864/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:2820980/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:1460971/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:2638272/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:2634383/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:2499043/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:1963721/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:1832273/69‑2 (MQ=255)
cGGCAATATGGTATTTCTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTcagccagt < 1:2422379/69‑2 (MQ=255)
tGGTATTTTTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTcgcgcg > 1:1937978/1‑69 (MQ=255)
gTATTTTTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt < 1:1911341/69‑1 (MQ=255)
gTATTTTTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt < 1:3162746/69‑1 (MQ=255)
gTATTTTTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt < 1:1004114/69‑1 (MQ=255)
tATTTTTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt < 1:1681646/68‑1 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGa > 1:2046663/1‑63 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt > 1:1574200/1‑64 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt > 1:1597667/1‑64 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt > 1:172768/1‑64 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt > 1:65297/1‑64 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt > 1:761139/1‑64 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt > 1:2017373/1‑64 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt > 1:597833/1‑64 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt > 1:502776/1‑64 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGAt > 1:2773115/1‑64 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGATTtcat < 1:300150/69‑1 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGATTtcat < 1:2205937/69‑1 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGATTtcat < 1:346452/69‑1 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGATTtcat < 1:2464339/69‑1 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGATTtcat < 1:1499663/69‑1 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGATTtcat < 1:947387/69‑1 (MQ=255)
tttCGATCAGTTTGTGCTGTTCCAGACAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGATTtcat < 1:238643/69‑1 (MQ=255)
ttCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGATTtcat < 1:3138149/68‑1 (MQ=255)
|
CCCATCCTGCAACGGATACTCGCCACCGCCGCCTTCGCGGGGAACACCATCGGCAATATGGTATTTTTCGATCAGTTTGTGCTGTTCCAGATAGAACTGATTCACCGTCTTCAGCCAGCTTCGCGCGATTTCAT > minE/2576506‑2576639
|
| 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
