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 |
2,057,964 |
C→T |
36.0% |
A263A (GCC→GCT) |
ttdA → |
L‑tartrate dehydratase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,057,964 | 0 | C | T | 36.0%
| 40.1
/ 33.6
| 61 | A263A (GCC→GCT) | ttdA | L‑tartrate dehydratase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (14/25); new base T (3/19); total (17/44) |
| Fisher's exact test for biased strand distribution p-value = 7.93e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCATCGTCGCGG > minE/2057897‑2058023
|
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTgccgcc > 1:1198852/1‑68 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:95821/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:3379849/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:3318407/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:3038221/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:2970442/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:2449759/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:1902571/1‑69 (MQ=255)
tGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:1645533/1‑69 (MQ=255)
tGGGGAATGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGccgccc > 1:441496/1‑69 (MQ=255)
tGGTCCACAAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATcc > 1:1068570/1‑69 (MQ=255)
tGGTCCACAAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATcc > 1:445190/1‑69 (MQ=255)
tGGTCCACAAGGGCTGACTGG‑AACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATcc > 1:2082076/1‑68 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:602792/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:2126044/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:1329164/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:2051014/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:3211413/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:1968877/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:2733263/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:546725/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:1484657/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:2395462/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:2439877/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:3159477/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:1744864/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:756073/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:1516947/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:802147/69‑1 (MQ=255)
caAGGGCTGACTGGCAACAGTTCAGTGATGGGCGTGCATATCGAATCTGCCGCTCGCCATCCGTCAAcc < 1:3107909/69‑1 (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 < 1:1145446/69‑1 (MQ=255)
tACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGgcgc < 1:1597352/69‑1 (MQ=255)
tACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGgcgc < 1:1548813/69‑1 (MQ=255)
aCATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGgcgc < 1:1963326/68‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:2541438/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:2946525/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:3197523/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:530806/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:702090/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:2086797/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:1598758/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:1731203/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:2784236/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:1787143/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:2481488/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:1928408/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:1444467/47‑1 (MQ=255)
atCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:2872006/47‑1 (MQ=255)
tCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCt > 1:3201020/1‑41 (MQ=255)
tCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGtctc < 1:532275/46‑1 (MQ=255)
tCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCAtcgtc > 1:1183067/1‑69 (MQ=255)
tCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCAtcgtc > 1:3141471/1‑69 (MQ=255)
tCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCAtcgtc > 1:1066989/1‑69 (MQ=255)
gAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCATCGTcgc > 1:1892725/1‑69 (MQ=255)
gAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCATCGTcgc > 1:1840650/1‑69 (MQ=255)
gAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCATCGTcgc > 1:2225108/1‑69 (MQ=255)
gAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCATCGTcgc > 1:201074/1‑69 (MQ=255)
gAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCATCGTcgc > 1:1168086/1‑69 (MQ=255)
gAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCATCGTcgc > 1:2334850/1‑69 (MQ=255)
gAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCATCGTcgc > 1:1336036/1‑69 (MQ=255)
gAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCATCGTcgc > 1:299456/1‑69 (MQ=255)
gAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCCgctg > 1:2249358/1‑53 (MQ=255)
aTCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCATCGTCGCgg > 1:1356779/1‑69 (MQ=255)
tCTGCCGCCCGCCATCCGTCAACCTTCGGCGTTGCTGtctc < 1:2660152/41‑1 (MQ=255)
|
TGGGGATTGGTCCACAAGGGCTGACCGGCAACAGTTCAGTGATGGGCGTACATATCGAATCTGCCGCCCGCCATCCGTCAACCATCGGCGTTGCTGTCTCTACCGGCTGCTGGGCGCATCGTCGCGG > minE/2057897‑2058023
|
| 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
