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 |
|
A12 F56 I1 R1
|
165 |
53.8 |
2611523 |
96.4% |
2517508 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,017,118 |
C→A |
R353R (CGC→CGA) |
ygfK → |
putative Fe‑S subunit oxidoreductase subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,017,118 | 0 | C | A | 93.8%
| 149.3
/ 0.1
| 48 | R353R (CGC→CGA) | ygfK | putative Fe‑S subunit oxidoreductase subunit |
| Reads supporting (aligned to +/- strand): ref base C (1/2); new base A (25/20); total (26/22) |
| Fisher's exact test for biased strand distribution p-value = 5.87e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
ATCAACAATAAAGGCGCACTGCCTGGTGAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGCGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAGGTATTCGCCCTATTACT > NC_000913/3017023‑3017211
|
aTCAACAATAAAGGCGCACTGCCTGGTGAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCt > 1:453833/1‑100 (MQ=255)
aacaaTAAAGGCGCACTGCCTGGTGAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTg > 2:256210/1‑100 (MQ=255)
aacaaTAAAGGCGCACTGCCTGGTGAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTg < 2:927823/100‑1 (MQ=255)
caaTAAAGGCGCACTGCCTGGTGAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGAc > 2:828469/1‑100 (MQ=255)
aaaGGCGCACTGCCTGGTGAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCa < 1:1230527/100‑1 (MQ=255)
cgcACTGCCTGGTGAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTg > 2:431009/1‑100 (MQ=255)
cACTGCCTGGTGAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGcc > 2:950986/1‑100 (MQ=255)
gCCTGGTGAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCAtt > 2:159905/1‑100 (MQ=255)
ggTGAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGTAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCtt > 1:834359/1‑100 (MQ=255)
gAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTAtt > 1:954260/1‑100 (MQ=255)
agagATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGTAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTcc < 2:834353/100‑1 (MQ=255)
gaTGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCggt < 1:1188090/100‑1 (MQ=255)
atatGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGc < 1:119766/100‑1 (MQ=255)
tatGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGcc < 2:708820/100‑1 (MQ=255)
tGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAg > 1:89613/1‑100 (MQ=255)
tGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAg < 2:12114/100‑1 (MQ=255)
cAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCa < 1:76047/100‑1 (MQ=255)
cAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCa < 2:132991/100‑1 (MQ=255)
cAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCa > 2:1079611/1‑100 (MQ=255)
ccGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTg < 2:1173913/100‑1 (MQ=255)
gTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGAc < 2:727332/100‑1 (MQ=255)
gcTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTa > 1:304489/1‑98 (MQ=255)
gTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCcgc < 1:1024422/100‑1 (MQ=255)
gTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCcgc > 1:158998/1‑100 (MQ=255)
ttCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGCGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCcgcg < 2:948904/100‑1 (MQ=255)
ttCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCcgcg < 2:472472/100‑1 (MQ=255)
cccGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGat < 1:950994/100‑1 (MQ=255)
cccGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGat < 1:6365/100‑1 (MQ=255)
acGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGCGCCTTTTACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCcg > 2:790972/2‑95 (MQ=255)
cGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGCGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGatat < 2:750348/100‑1 (MQ=255)
cGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGatat < 2:959205/100‑1 (MQ=255)
ctctCCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATAttt > 2:58073/1‑100 (MQ=255)
ctcCATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATAttttt < 2:1270916/100‑1 (MQ=255)
ccATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGa > 2:472104/1‑100 (MQ=255)
ccATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGa < 1:803541/100‑1 (MQ=255)
cATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGAt > 2:1928/1‑100 (MQ=255)
cATCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGAt > 1:14703/1‑100 (MQ=255)
tCAATGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATAc > 2:1205716/1‑100 (MQ=255)
aaTGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAg < 2:158996/100‑1 (MQ=255)
aTGTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAgg > 1:5216/1‑100 (MQ=255)
gTTGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAGGTa > 2:702483/1‑100 (MQ=255)
tGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAGGTAtt > 2:1145408/1‑100 (MQ=255)
tGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAGGTAtt > 2:1047347/1‑100 (MQ=255)
tGCAGCAGTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAGGTAtt > 1:737893/1‑100 (MQ=255)
cagcagTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAGGTATTCg > 2:394539/1‑100 (MQ=255)
cagcagTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAGGTATTCg > 2:557948/1‑100 (MQ=255)
gcagTTCTCTCTCGAGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAGGTATTCGcc < 1:260054/100‑1 (MQ=255)
ctctcGAGCCTTTGACGGCAAACTGCCTATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAGGTATTCGCCCTATTACt > 1:1027674/1‑100 (MQ=255)
|
ATCAACAATAAAGGCGCACTGCCTGGTGAAGAGATGTATATGTCAGGCCGTGCGCTGTTCCCGCTCTCCATCAATGTTGCAGCAGTTCTCTCTCGCGCCTTTGACGGCAAACTGCCCATTTCTTATTCCGGTGGTGCCAGTCAGCTGACTATCCGCGATATTTTTGATACAGGTATTCGCCCTATTACT > NC_000913/3017023‑3017211
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
