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 |
|
A4 F1 I2 R1
|
67 |
32.5 |
1435938 |
95.9% |
1377064 |
112.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,123,022 |
C→T |
E262K (GAA→AAA) |
glcB ← |
malate synthase G |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,123,022 | 0 | C | T | 84.6%
| 27.9
/ ‑2.2
| 13 | E262K (GAA→AAA) | glcB | malate synthase G |
| Reads supporting (aligned to +/- strand): ref base C (1/1); new base T (9/2); total (10/3) |
| Fisher's exact test for biased strand distribution p-value = 4.23e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGTTTTTCTCCATTTTCTCTTGCAGAGTCCCCTGCATCAGGCCCAGCAGGTTGCGGTACAGCAGGATTTTATCTTCCGCATCAACCGCCGCGACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTCGACGATAACATCGTTGATGTGCGCCGGATCGTCTTTGCCAATCCGCCCATTGGCATCGATTTGCAGCTCAATATGCAGGCCGTTATTTTTCAGCAAAATGCAGGTCGGCGCAGCGGCATCGCCACGGTAACCG > NC_000913/3122890‑3123155
|
cttttttCTCCATTTTCATTTGCAGAGTCCCCTGCATCAGGCCCAGCAGGTTGCGGTACAGCAGGATTTTATCTTCCGCATCAACCGCCGCCACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTCGACGAt < 1:494057/137‑1 (MQ=255)
tctTGCAGAGTCCCCTGCATCAGGCCCAGCAGGTTGCGGTACAGCAGGATTTTATCTTCCGCATCAACCGTCGCGACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTTGACGATAACATCGTTGATGTgcg > 1:36071/1‑139 (MQ=255)
agcagGTTGCGGTACAGCAGGATTTTATCTTCCGCATCAACCGCCGCGACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTTGACGATAACATCGTTGATGTGCGCCGGATCGTCTTTGCCAATCCGCCCAt > 1:460669/1‑139 (MQ=255)
gTTGCGGTACAGCAGGATTTTATCTTCCGCATCAACCGTCGCGACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTTGACGATAACATCGTTGATGTGCGCCGGATCGTCTTTGCCAATCCGCCCATTGGCa < 2:36071/139‑1 (MQ=255)
cagGATTTTATCTTCCGCATCAACCGCCGCGACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTTGACGAt < 1:598967/78‑1 (MQ=255)
cagGATTTTATCTTCCGCATCAACCGCCGCGACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTTGACGAt > 2:598967/1‑78 (MQ=255)
gATTTTATCTTCCGCATCAACCGCCGCGACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTTGACGATAACATCGTTGATGTGCGCCGGATCGTCTTTGCCAATCCGCCCATTGGCATCGATTTGCAGCTCa > 1:140707/1‑139 (MQ=255)
cGCATCAACCGCCGCGACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTTGACGATAACATCGTTGATGTGCGCCGGATCGTCTTTGCCAATCCGCCCATTGGCATCGATTTGCAGCTCAATATGCAGGCCg > 2:466275/1‑139 (MQ=255)
cATCAACCGCCGCGACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTTGACGATAACATCGTTGATGTGCGCCGGATCGTCTTTGCCAATCCGCCCATTGGCATCGATTTGCAGCTCAATATGCAGGCCGtt > 1:411698/1‑139 (MQ=255)
gcgACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTTGACGATAACATCGTTGATGTGCGCCGGATCGTCTTTGCCAATCCGCCCATTGGCATCGATTTGCAGCTCAATATGCAGGCCGTTATTTTTCAGCa > 1:25843/1‑139 (MQ=255)
gCAGTCGAGAATGGTACTGATAGCAGCTTTGACGATAACATCGTTGATGTGCGCCGGATCGTCTTTGCCAATCCGCCCATTGGCATCGATTTGCAGCTCAATATGCAGGCCGTTATTTTTCAGCAAAATGCAGGTCGgc > 1:424414/1‑139 (MQ=255)
aaTGGTACTGATAGCAGCTTCGACGATAACATCGTTGATGTGCGCCGGATCGTCTTTGCCAATCCGCCCATTGGCATCGATTTGCAGCTCAATATGCAGGCCGTTATTTTTCAGCAAAATGCAGGTCGGCGCAGCGGCa > 2:625075/1‑139 (MQ=255)
agcTTTGACGATAACATCGTTGATGTGCGCCGGATCGTCTTTGCCAATCCGCCCATTGGCATCGATTTGCAGCTCAATATGCAGGCCGTTATTTTTCAGCAAAATGCAGGTCGGCGCAGCGGCATCGCCACGGTAACCg > 1:338443/1‑139 (MQ=255)
|
CGTTTTTCTCCATTTTCTCTTGCAGAGTCCCCTGCATCAGGCCCAGCAGGTTGCGGTACAGCAGGATTTTATCTTCCGCATCAACCGCCGCGACCGAATCTTCGCAGTCGAGAATGGTACTGATAGCAGCTTCGACGATAACATCGTTGATGTGCGCCGGATCGTCTTTGCCAATCCGCCCATTGGCATCGATTTGCAGCTCAATATGCAGGCCGTTATTTTTCAGCAAAATGCAGGTCGGCGCAGCGGCATCGCCACGGTAACCG > NC_000913/3122890‑3123155
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
