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 |
601,323 |
G→A |
100% |
V198M (GTG→ATG) |
dmsC → |
dimethyl sulfoxide reductase, anaerobic, subunit C |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 601,323 | 0 | G | A | 82.0%
| 46.7
/ 3.7
| 33 | V198M (GTG→ATG) | dmsC | dimethyl sulfoxide reductase, anaerobic, subunit C |
| Reads supporting (aligned to +/- strand): ref base G (1/5); new base A (0/27); total (1/32) |
| Fisher's exact test for biased strand distribution p-value = 1.82e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GATGGCTGGGCGATGCGTCTGCTGCCAGCAATTTCTGTACTGGCACTGGTAGTGAGTGGCGTGGTGTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCT > minE/601260‑601387
|
gATGTCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGAGTCGTGATGTCa < 1:2700124/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:1834069/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2695973/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2663611/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2767115/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2437765/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2424441/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2296463/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2248369/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2242669/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2894875/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2174528/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2110302/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2915357/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:2954829/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:1669738/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:3300349/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:1533111/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:465020/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:1285133/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:1200161/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:1171902/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:702713/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTCATGTCa < 1:441740/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCCATTTCTGTTCTGGCACTGGTAGTGAGGGGCGTGATGTCa < 1:2915567/69‑1 (MQ=255)
gATGGCTGGGCGATGCGTCTGCTGCCAGCAATTTCTGTACTGGCACTGGTAGTGAGTGGCGTGGTGTCa > 1:1298157/1‑69 (MQ=255)
tgctgcCAGCCATTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:3005822/50‑1 (MQ=255)
ctgcCAGCAATTTCTGTACTGGCACTGGTAGTGAGTGGCGTGGTGTCAGTGATGCAGGGCGCAGAGCt < 1:2195345/68‑1 (MQ=255)
ctgcCAGCAATTTCTGTACTGGCACTGGTAGTGAGTGGCGTGGTGTCAGTGATGCAGGGCGCAGAGCt < 1:576384/68‑1 (MQ=255)
gccagccaTTTCTGTTCTGGCACTGGTAGTGAGTGGCGTGATGTCa < 1:1118055/46‑1 (MQ=255)
gcCAGCAATTTCTGTACTGGCACTGGTAGTGAGTGGCGTGGTGTCAGTGATGCAGGGCGCAGAGCt < 1:2528714/66‑1 (MQ=255)
gcCAGCAATTTCTGTACTGGCACTGGTAGTGAGTGGCGTGGTGTCAGTGATGCAGGGCGCAGAGCt < 1:1888017/66‑1 (MQ=255)
gcCAGCAATTTCTGTACTGGCACTGGTAGTGAGTGGCGTGGTGTCAGTGATGCAGGGCGCAGAGCt < 1:297145/66‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:2195230/68‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:1792384/68‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:2945402/68‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:1749194/68‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:1736818/68‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:1622306/68‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:1490974/68‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:1441404/68‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:1316421/68‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:707509/68‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:737421/68‑1 (MQ=255)
gtggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:832513/68‑1 (MQ=255)
tggtgTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCt < 1:1114290/67‑1 (MQ=255)
|
GATGGCTGGGCGATGCGTCTGCTGCCAGCAATTTCTGTACTGGCACTGGTAGTGAGTGGCGTGGTGTCAGTGATGCAGGGCGCAGAGCTGGCGACTATTCATAGTTCTGTGCAGCAGGCCGCAGCGCT > minE/601260‑601387
|
| 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
