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 |
612,948 |
C→T |
31.1% |
A128A (GCG→GCA) |
ycaO ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 612,948 | 0 | C | T | 31.1%
| 57.2
/ 29.3
| 64 | A128A (GCG→GCA) | ycaO | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (33/11); new base T (12/8); total (45/19) |
| Fisher's exact test for biased strand distribution p-value = 2.50e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.97e-01 |
ACCGGATTGTAGGTCAATCAGCATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTC > minE/612891‑613016
|
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGCCg > 1:1498035/1‑69 (MQ=255)
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGACg > 1:3255686/1‑69 (MQ=255)
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGACg > 1:277342/1‑69 (MQ=255)
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGACg > 1:3053805/1‑69 (MQ=255)
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGACg > 1:155391/1‑69 (MQ=255)
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGACg > 1:1446605/1‑69 (MQ=255)
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGACg > 1:3200841/1‑69 (MQ=255)
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGACg > 1:3207657/1‑69 (MQ=255)
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGACg > 1:1813672/1‑69 (MQ=255)
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGACg > 1:2356485/1‑69 (MQ=255)
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGACg > 1:2226707/1‑69 (MQ=255)
aCCGGATTGCAGGTCAATCAGCATACTACCGGTCAGTTCATTCTCCGGATCGTAAAATGCGCGCAGACg > 1:425304/1‑69 (MQ=255)
ggTCAATCAGCATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGCCGGTCATCGag > 1:3277102/1‑67 (MQ=255)
ggTCAATCAGCATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGagca > 1:1277258/1‑69 (MQ=255)
ggTCAATCAGCATGCTGCCGGTCAGTTCATTATCCGGATCATAAAACGCGCGCAGACGGTCATCGagca > 1:1231903/1‑69 (MQ=255)
cATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAg > 1:626100/1‑45 (MQ=255)
cATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTgg > 1:3168312/1‑69 (MQ=255)
cATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTgg > 1:180593/1‑69 (MQ=255)
cATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTgg > 1:2471259/1‑69 (MQ=255)
cATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTgg > 1:2221094/1‑69 (MQ=255)
cATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTgg < 1:2061171/69‑1 (MQ=255)
cATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTgg > 1:1531783/1‑69 (MQ=255)
cATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTgg < 1:143878/69‑1 (MQ=255)
cATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTgg > 1:1174477/1‑69 (MQ=255)
cATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTgg > 1:350302/1‑69 (MQ=255)
cATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTgg > 1:560765/1‑69 (MQ=255)
gctgcCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGag < 1:2929663/54‑1 (MQ=255)
gctgcCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGag < 1:1767226/54‑1 (MQ=255)
gctgcCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGcac < 1:821672/69‑1 (MQ=255)
tCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATc > 1:103485/1‑38 (MQ=255)
tCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCg > 1:902449/1‑69 (MQ=255)
tCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCg > 1:1603213/1‑69 (MQ=255)
tCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCg > 1:2793241/1‑69 (MQ=255)
tCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCg > 1:2655686/1‑69 (MQ=255)
tCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCg > 1:2444260/1‑69 (MQ=255)
tCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCg > 1:3332061/1‑69 (MQ=255)
tCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAACAGCCCTTCTGGCACATCGTCATTTTc > 1:2716672/1‑68 (MQ=255)
aTAAAACGCGCGCAGACTGTCATCGATCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGTAACCa < 1:1574725/69‑1 (MQ=255)
aTAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCa < 1:1157026/69‑1 (MQ=255)
aTAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCa < 1:2372235/69‑1 (MQ=255)
aTAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCa < 1:1444329/69‑1 (MQ=255)
aTAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCa < 1:156683/69‑1 (MQ=255)
aTAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCa < 1:2970305/69‑1 (MQ=255)
aaaTGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGtaca < 1:3387609/40‑1 (MQ=38)
aaaTGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGtaca < 1:1143180/40‑1 (MQ=38)
aaaTGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGtaca < 1:2795263/40‑1 (MQ=38)
aaaTGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGtaca < 1:457605/40‑1 (MQ=38)
aaaTGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGtaca < 1:1084269/40‑1 (MQ=38)
aaaTGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGtaca < 1:2969469/40‑1 (MQ=38)
aaaTGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGtaca < 1:1707741/40‑1 (MQ=38)
aaaTGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGtaca < 1:2314570/40‑1 (MQ=38)
aaaCGCGCGCAGACGGTCATCGAGCATCCCTTCTGGCACATCGTCATTTTCGGTc > 1:2149787/1‑55 (MQ=255)
aaaCGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTc > 1:2742902/1‑55 (MQ=255)
aaaCGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTc > 1:2192035/1‑55 (MQ=255)
aaaCGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTc > 1:1125550/1‑55 (MQ=255)
aaaCGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTc > 1:2007734/1‑55 (MQ=255)
aaaCGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTc > 1:1959644/1‑55 (MQ=255)
aaaCGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTc > 1:1952924/1‑55 (MQ=255)
aaaCGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTc > 1:144299/1‑55 (MQ=255)
aaaCGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTc > 1:2374168/1‑55 (MQ=255)
aaaCGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTc > 1:104742/1‑55 (MQ=255)
aaaCGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTc > 1:2484304/1‑55 (MQ=255)
aaaCGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTc > 1:1023915/1‑55 (MQ=255)
aaaCGCACGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGCTc > 1:436419/1‑55 (MQ=255)
cgcgcgCAGACGGTCATCGAGCAGCCCTTCTGTCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTc < 1:1380163/69‑1 (MQ=255)
cgcgcgCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCTTTTTTc < 1:435708/69‑1 (MQ=255)
cgcgcgCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTc < 1:619375/69‑1 (MQ=255)
cgcgcgCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTc < 1:2188618/69‑1 (MQ=255)
cgcgcgCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTc < 1:2190063/69‑1 (MQ=255)
cgcgcgCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTc < 1:3305878/69‑1 (MQ=255)
cgcgcgCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTc < 1:146636/69‑1 (MQ=255)
cgcgcgCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTc < 1:2506568/69‑1 (MQ=255)
cgcgcgCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTc < 1:259014/69‑1 (MQ=255)
cgcgcgCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATATTCGGTCAGTGGGAACCATTTTTc < 1:851501/69‑1 (MQ=255)
|
ACCGGATTGTAGGTCAATCAGCATGCTGCCGGTCAGTTCATTCTCCGGATCATAAAACGCGCGCAGACGGTCATCGAGCAGCCCTTCTGGCACATCGTCATTTTCGGTCAGTGGGAACCATTTTTC > minE/612891‑613016
|
| 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
