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 |
|
A1 F1 I2 R1
|
730 |
35.1 |
2107516 |
91.4% |
1926269 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,485,644 |
C→T |
G59R (GGG→AGG) |
yhfA ← |
OsmC family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,485,644 | 0 | C | T | 97.4%
| 130.4
/ ‑4.3
| 38 | G59R (GGG→AGG) | yhfA | OsmC family protein |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (15/22); total (16/22) |
| Fisher's exact test for biased strand distribution p-value = 4.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01 |
GTGCGTAAACAGGCGTGGTGCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCCTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAACACCATTTCCATCGGACTTGG > NC_000913/3485567‑3485719
|
gtgCGTAAACAGGCGTGGTGCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCtttt > 2:665281/1‑81 (MQ=255)
tAAACAGGCGTGGTGCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTg > 2:665293/1‑79 (MQ=255)
aaCAGGCGTGGTGCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAg > 2:665311/1‑80 (MQ=255)
aaCAGGCGTGGTGCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAg < 2:665246/80‑1 (MQ=255)
cAGGCGTGGTGCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGAt < 1:665247/81‑1 (MQ=255)
aGGCGTGGTGCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATc < 2:665248/81‑1 (MQ=255)
ggCGTGGT‑CCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCg > 1:665303/1‑80 (MQ=255)
gCGTGGTGCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCg > 2:665315/1‑80 (MQ=255)
gCGTGGTGCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGa < 2:665250/81‑1 (MQ=255)
gCGTGGTGCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGa < 2:665249/81‑1 (MQ=255)
gtggtgCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGaaa > 2:665299/1‑81 (MQ=255)
gtgCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAAcc < 1:665252/80‑1 (MQ=255)
gtgCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACca < 2:665251/81‑1 (MQ=255)
gCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACcaca > 2:665294/1‑81 (MQ=255)
gCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCATGACGCCTTTTTTGCAGGATCGAAACcaca > 1:665307/1‑81 (MQ=255)
ccTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACAt < 2:665254/81‑1 (MQ=255)
ccTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACAt < 2:665253/81‑1 (MQ=255)
tCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATg > 2:665320/1‑81 (MQ=255)
cgcgGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGa < 1:665255/78‑1 (MQ=255)
ttCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCa < 1:665256/81‑1 (MQ=255)
ttCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCa < 2:665257/81‑1 (MQ=255)
agGTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAaccac < 1:665258/81‑1 (MQ=255)
gTCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCAccc < 2:665259/81‑1 (MQ=255)
tCAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACccg > 1:665295/1‑81 (MQ=255)
cAATTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACccgc > 1:665305/1‑81 (MQ=255)
aaTTTTACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACccgcc < 1:665260/81‑1 (MQ=255)
ttttACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCcgccgc < 2:665261/81‑1 (MQ=255)
ttACTTCACAATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCgccgcc < 2:665262/80‑1 (MQ=255)
cacaATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCaa < 2:665263/79‑1 (MQ=255)
cacaATCGACCACATCCTGACG‑CCTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAacac > 2:665301/1‑81 (MQ=255)
caATCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAACAcc < 2:665264/81‑1 (MQ=255)
tCGACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAACACCAtt < 1:665265/81‑1 (MQ=255)
gACCACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAACACCATTTc > 1:665309/1‑81 (MQ=255)
ccACATCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAACACCATTTCCa > 1:665316/1‑81 (MQ=255)
cacaTCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAACACCATTTCCAt > 1:665306/1‑81 (MQ=255)
acaTCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAACACCATTTCCATc > 1:665327/1‑81 (MQ=255)
acaTCCTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAACACCATTTCCATc < 1:665266/81‑1 (MQ=255)
cTGACGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAACACCATTTCCATCGGACt > 2:665304/1‑81 (MQ=255)
aCGCCTTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAACACCATTTCCATCGGACTTgg < 1:665267/81‑1 (MQ=255)
|
GTGCGTAAACAGGCGTGGTGCCTCTTCGCGGCGTTCAGAGGTCAATTTTACTTCACAATCGACCACATCCTGACGCCCTTTTTGCAGGATCGAAACCACATCGATGGCACTGCAACCACCCGCCGCCATCAACACCATTTCCATCGGACTTGG > NC_000913/3485567‑3485719
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
