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 |
2,057,946 |
A→G |
47.8% |
V257V (GTA→GTG) |
ttdA → |
L‑tartrate dehydratase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,057,946 | 0 | A | G | 47.8%
| ‑2.8
/ 38.7
| 46 | V257V (GTA→GTG) | ttdA | L‑tartrate dehydratase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (14/10); new base G (3/19); total (17/29) |
| Fisher's exact test for biased strand distribution p-value = 2.31e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.68e-01 |
AGGACTCAACCGTCTGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGC > minE/2057883‑2058013
|
agGACTCAACCGTCTGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTa < 1:725164/64‑1 (MQ=255)
agGACTCAACCGTCTGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTa < 1:3079529/64‑1 (MQ=255)
agGACTCAACCGTCTGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTa < 1:622608/64‑1 (MQ=255)
agGACTCAACCGTCTGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACata > 1:1043503/1‑68 (MQ=255)
agGACTCAACCGTCTGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACata > 1:2255448/1‑68 (MQ=255)
agGACTCAACCGTCTGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACata > 1:2030258/1‑68 (MQ=255)
agGACTCAACCGTCTGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACata > 1:2587907/1‑68 (MQ=255)
agGACTCAACCGTCTGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACa < 1:469689/66‑1 (MQ=255)
agGACTCAACCGTCTGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACa < 1:1390057/66‑1 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTgccgcc > 1:1198852/1‑68 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:1645533/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:3379849/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:3318407/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:3038221/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:1902571/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:2970442/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:2449759/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:95821/1‑69 (MQ=255)
tGGGGAATGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:441496/1‑69 (MQ=255)
tGGTCCACAAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATcc > 1:445190/1‑69 (MQ=255)
tGGTCCACAAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATcc > 1:1068570/1‑69 (MQ=255)
tGGTCCACAAGGGCTGACTGG‑AACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATcc > 1:2082076/1‑68 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:2126044/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:802147/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:756073/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:1329164/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:1484657/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:602792/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:546725/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:1516947/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:1744864/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:3211413/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:3159477/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:3107909/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:2733263/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:1968877/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:2439877/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:2395462/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:2051014/69‑1 (MQ=255)
cTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:1964533/63‑1 (MQ=255)
ggCAACAGTTCAGTGATGGGCGTACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCt < 1:175529/69‑1 (MQ=255)
ggCAACAGTTCAGTGATGGGCGTACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCt < 1:1746616/69‑1 (MQ=255)
aGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:3048091/51‑1 (MQ=38)
ggCGTACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTgg < 1:3046662/69‑1 (MQ=255)
ggCGTACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTgg < 1:1808226/69‑1 (MQ=255)
ggCGTACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGCCGTTGCTGTCTCTACCGGCTGCTgg < 1:744930/69‑1 (MQ=255)
tACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGgcgc < 1:1597352/69‑1 (MQ=255)
tACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGgcgc < 1:1548813/69‑1 (MQ=255)
tACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGgcgc < 1:1145446/69‑1 (MQ=255)
aCATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGgcgc < 1:1963326/68‑1 (MQ=255)
|
AGGACTCAACCGTCTGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGC > minE/2057883‑2058013
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
