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 |
2,851,132 |
A→T |
41.0% |
P297P (CCT→CCA) |
psd ← |
phosphatidylserine decarboxylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,851,132 | 0 | A | T | 41.0%
| 15.1
/ 35.1
| 39 | P297P (CCT→CCA) | psd | phosphatidylserine decarboxylase |
| Reads supporting (aligned to +/- strand): ref base A (10/13); new base T (12/4); total (22/17) |
| Fisher's exact test for biased strand distribution p-value = 9.94e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTTTTTGTCGTCAACCAATGGGCTGGCGTCGTGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGATACTGCCAGCGGCTGGCCAATTTTCGTGACAGA > minE/2851065‑2851200
|
cTTTTTTGTCGTCAACCAATGGGCTGGCGTCGTGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAg > 1:2865381/1‑69 (MQ=255)
cTTTTTTGTCGTCAACCAATGGGCTGGCGTCGTGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAg > 1:2130001/1‑69 (MQ=255)
cTTTTTTGTCGTCAACCAATGGGCTGGCGTCGTGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAg > 1:1815059/1‑69 (MQ=255)
aaCCAATGGGCTGGCGTCGTGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTgg > 1:899995/1‑69 (MQ=255)
aaCCAATGGGCTGGCGTCGTGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTgg > 1:2859055/1‑69 (MQ=255)
cgtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTgg > 1:3195833/1‑43 (MQ=255)
cgtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGttt > 1:2638473/1‑69 (MQ=255)
cgtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGttt > 1:949384/1‑69 (MQ=255)
cgtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGttt > 1:1115106/1‑69 (MQ=255)
cgtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGttt > 1:2403429/1‑69 (MQ=255)
cgtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGttt > 1:1982515/1‑69 (MQ=255)
cgtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGttt > 1:1971906/1‑69 (MQ=255)
cgtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGttt > 1:1502550/1‑69 (MQ=255)
cgtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGttt > 1:1745254/1‑69 (MQ=255)
cgtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGAGTCTGGCGTAACAAAGGttt > 1:2413100/1‑69 (MQ=255)
cgtcgtGTTCTGCATCGATCTCTTAAGCAGGAAGCGGGGCTGGTTCACCGt > 1:2842701/1‑51 (MQ=255)
cgtcatGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGttt > 1:2071098/1‑69 (MQ=255)
gtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGTTTc < 1:1887504/69‑1 (MQ=255)
gtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGTTTc < 1:3319605/69‑1 (MQ=255)
gtcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGTTTc < 1:1338503/69‑1 (MQ=255)
tcgtGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCTGGTTCAGCGTCTGGCGTAACAAAGGTTTc < 1:1354697/68‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:899116/69‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:1557154/69‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:431816/69‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:2463265/69‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:1500186/69‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:2913691/69‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:1994772/69‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:3200427/69‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:3227130/69‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:3274953/69‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:3307037/69‑1 (MQ=255)
ttCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGa < 1:3348945/69‑1 (MQ=255)
cTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTGTGGCGTAACAAAGGTTTCGGTAGATa < 1:3198191/69‑1 (MQ=255)
ctctTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGATACTGCCAGCgg > 1:299969/1‑69 (MQ=255)
ctctTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGATACTGCCAGCgg > 1:1807714/1‑69 (MQ=255)
aGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGATACTGCCAGCGGCTGGCCAATTTTc > 1:2656441/1‑69 (MQ=255)
aGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGATACTGCCAGCGGCTGGCCAATTTTc > 1:560393/1‑69 (MQ=255)
aGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTAGGTAGATACTGCCAGCGGCTGGCCAATTTTc > 1:2586893/1‑69 (MQ=255)
aGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGATACTGCCAGCGGCTGGCCAATTTTCGTgacaga < 1:676925/69‑1 (MQ=255)
aGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGATACTGCCAGCGGCTGGCCAATTTTCGTgacaga < 1:1313218/69‑1 (MQ=255)
|
CTTTTTTGTCGTCAACCAATGGGCTGGCGTCGTGTTCTGCTTCGATCTCTTCAGCAGGAAGCGGGGCAGGTTCAGCGTCTGGCGTAACAAAGGTTTCGGTAGATACTGCCAGCGGCTGGCCAATTTTCGTGACAGA > minE/2851065‑2851200
|
| 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
