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 |
|
A5 F28 I2 R1
|
721 |
0.0 |
1472758 |
54.8% |
807071 |
56.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,282,229 |
A→G |
A53A (GCA→GCG) |
yjcD → |
predicted permease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,282,229 | 0 | A | G | 77.5%
| 72.6
/ 14.6
| 49 | A53A (GCA→GCG) | yjcD | predicted permease |
| Reads supporting (aligned to +/- strand): ref base A (11/0); new base G (0/38); total (11/38) |
| Fisher's exact test for biased strand distribution p-value = 3.43e-11 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTCGTTCCAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTGTCTGGTT > W3110S.gb/4282203‑4282271
|
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:509981/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:789407/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:252904/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:317190/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:406725/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1071248/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:436594/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:457522/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:487765/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:496547/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:829282/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:521006/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:766661/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:580586/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:664047/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:697869/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:709151/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:755653/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:720161/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1271112/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1083307/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1089396/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:109079/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:112382/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:923737/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:903238/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1145664/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1185495/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1312311/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1351669/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1364214/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:842695/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1403275/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:833835/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1428134/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1440960/62‑1 (MQ=255)
gtcgtTCCAGGCATGTTGGGTAAAGCGCGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:1415005/62‑1 (MQ=255)
ggcgtTCCAGGCATGTTGGGTAAAGCGGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTg < 1:526557/60‑1 (MQ=39)
cAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGGGGCAGTTTTCGTTGCAACCTGTCTGGtt > 1:429631/1‑62 (MQ=255)
cAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAAc > 1:537916/1‑52 (MQ=255)
cAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAAc > 1:1135868/1‑52 (MQ=255)
cAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTGTCTGGtt > 1:714185/1‑62 (MQ=255)
cAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTGTCTGGtt > 1:216151/1‑62 (MQ=255)
cAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTGTCTGGtt > 1:1466318/1‑62 (MQ=255)
cAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTGTCTGGtt > 1:141794/1‑62 (MQ=255)
cAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTGTCTGGtt > 1:1401560/1‑62 (MQ=255)
cAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTGTCTGGtt > 1:1140031/1‑62 (MQ=255)
cAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTGTCTGGtt > 1:997968/1‑62 (MQ=255)
cAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCATTGCAACCTGTCTGGtt > 1:76357/1‑62 (MQ=255)
|
GTCGTTCCAGGTATGTTGGGTAAAGCAGGCTTCCCGCCTGCGGCAGTTTTCGTTGCAACCTGTCTGGTT > W3110S.gb/4282203‑4282271
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
