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 |
1,496,624 |
A→G |
41.3% |
D306D (GAT→GAC) |
nuoF ← |
NADH:ubiquinone oxidoreductase, chain F |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,496,624 | 0 | A | G | 41.3%
| 12.3
/ 31.7
| 46 | D306D (GAT→GAC) | nuoF | NADH:ubiquinone oxidoreductase, chain F |
| Reads supporting (aligned to +/- strand): ref base A (9/18); new base G (4/15); total (13/33) |
| Fisher's exact test for biased strand distribution p-value = 5.10e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCCAGCGCCGTACCCAGACGGCTGCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAGGCTTTAAATTTCAGAC > minE/1496565‑1496691
|
gCCAGCGCCGTACCCAGACGGCTGCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGGTgc > 1:274694/1‑69 (MQ=255)
gcCGTACCCAGACGGCTGCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGGTGCGCTTCg > 1:2404419/1‑69 (MQ=255)
gcCGTACCCAGACGGCTGCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGGTGCGCTTCg > 1:1368513/1‑69 (MQ=255)
cAGACGGCTTCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTc > 1:2487579/1‑64 (MQ=255)
cAGACGGCTTCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTc > 1:1389809/1‑64 (MQ=255)
cAGACGGCTTCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTc > 1:2062758/1‑64 (MQ=255)
cAGACGGCTTCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTc > 1:1466888/1‑64 (MQ=255)
cGGCTGCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGTTGCGCTTCGGTCAGGAagtca < 1:754539/69‑1 (MQ=255)
cGGCTGCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAagtca < 1:970765/69‑1 (MQ=255)
cGGCTGCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAagtca < 1:1076894/69‑1 (MQ=255)
cGGCTGCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAagtca < 1:2081855/69‑1 (MQ=255)
cGGCTGCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAagtca < 1:275411/69‑1 (MQ=255)
cGGCTGCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAagtca < 1:1707553/69‑1 (MQ=255)
cGGCTGACCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAagtca < 1:197740/69‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCTGTCAGGAagt < 1:1541578/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:3008105/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:279890/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:3256872/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:717467/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:2671007/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:2563527/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:80779/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:959873/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:2545291/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:2210186/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:2200579/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:1938152/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:1180462/61‑1 (MQ=255)
tcccGCTTTACCGATACTTTCGAATTCCATCGGCAGGTCAAGGTGCGCTTCGGTCAGGAagt < 1:1784383/61‑1 (MQ=255)
cGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAgg > 1:793011/1‑69 (MQ=255)
cGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAgg > 1:1227701/1‑69 (MQ=255)
cGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAgg > 1:3120287/1‑69 (MQ=255)
cGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAgg > 1:3351218/1‑69 (MQ=255)
cGAATTCCATCGGCAGATAAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCt > 1:3270497/1‑59 (MQ=255)
cGAATTCCATAGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAgg > 1:1907751/1‑69 (MQ=255)
gAATTCCATCGGCAGATCAAGGTGTGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAgg < 1:1113575/68‑1 (MQ=255)
gAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAg < 1:383185/67‑1 (MQ=255)
gAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAg < 1:508513/67‑1 (MQ=255)
gAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAg < 1:1252285/67‑1 (MQ=255)
gAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAg < 1:294358/67‑1 (MQ=255)
gAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAg < 1:2891717/67‑1 (MQ=255)
gAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAg < 1:2602819/67‑1 (MQ=255)
aaTTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAg < 1:113778/66‑1 (MQ=255)
gATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAGGCTTTAAATTTCAGAc < 1:1454613/69‑1 (MQ=255)
gATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAGGCTTTAAATTTCAGAc < 1:1871446/69‑1 (MQ=255)
gATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAGGCTTTAAATTTCAGAc < 1:92913/69‑1 (MQ=255)
|
GCCAGCGCCGTACCCAGACGGCTGCCCGCTTTACCGATACTTTCGAATTCCATCGGCAGATCAAGGTGCGCTTCGGTCAGGAAGTCAGTCCCCGCGCCGCCTGGCTGCCAGGCTTTAAATTTCAGAC > minE/1496565‑1496691
|
| 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
