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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,041,745 |
C→T |
100% |
A44V (GCC→GTC) |
yedY → |
predicted reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,041,745 | 0 | C | T | 87.5%
| 55.5
/ 2.2
| 24 | A44V (GCC→GTC) | yedY | predicted reductase |
| Reads supporting (aligned to +/- strand): ref base C (0/3); new base T (11/10); total (11/13) |
| Fisher's exact test for biased strand distribution p-value = 2.23e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.53e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTGTTAAAAGCACTGGGCATCAGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGCCGATCTGCTTAGCTGGTTTAAAGGGAACGATCGCCCG > W3110S.gb/2041687‑2041782
|
gtgtTAAAAGCACTGGGCATCAGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGa < 1:827401/62‑1 (MQ=255)
gtgtTAAAAGCACTGGGCATCAGTGCAACTGCACTTTCTTTGCCTCACGCTCCGCATGTCGa < 1:1668146/62‑1 (MQ=255)
gtTAAAAGCACTGGGCATCAGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCt > 1:1668591/1‑71 (MQ=255)
aaaaGCACTGGGCATCAGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGAt > 1:2093409/1‑58 (MQ=255)
gCACTGGGCATCAGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTaa < 1:2215792/71‑1 (MQ=255)
gCACTGGGCATCAGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTaa < 1:49985/71‑1 (MQ=255)
tCAGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCg < 1:1907312/42‑1 (MQ=255)
tCAGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCg < 1:28443/42‑1 (MQ=255)
tCAGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGAACg < 1:595882/69‑1 (MQ=255)
aGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGAACGAt > 1:1453630/1‑69 (MQ=255)
aGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGAACGAt > 1:788721/1‑69 (MQ=255)
aGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGAACGAt > 1:1974001/1‑69 (MQ=255)
aGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGAACGAt > 1:2243711/1‑69 (MQ=255)
aGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGAACGAt > 1:1406871/1‑69 (MQ=255)
aGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGAACGATcg > 1:2416091/1‑71 (MQ=255)
tGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGc < 1:414998/49‑1 (MQ=255)
gCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGaa > 1:920179/1‑62 (MQ=255)
gCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGAACGATcgccc > 1:2532832/1‑71 (MQ=255)
gCAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGAACGATcgccc > 1:229452/1‑71 (MQ=255)
cAACTGCACTTTCTTTGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGAACGATcgcccg < 1:977557/71‑1 (MQ=255)
aCTGCACTTTCTTTGCCTCACGCTGCGCATGCCGATCTGCTTAGCTGGTTTAAAGGGAACg < 1:1943011/61‑1 (MQ=255)
aCTGCACTTTCTTTGCCTCACGCTGCGCATGCCGATCTGCTTAGCTGGTTTAAAGGGAACg < 1:1688016/61‑1 (MQ=255)
tttctttGCCTCACGCTGCGCATGTCGATCTGCTTAGCTGGTTTAAAGGGAACg < 1:244318/54‑1 (MQ=255)
aCGCTGCGCATGCCGATCTGCTTAGCTGGTTTAAAggg < 1:370877/38‑1 (MQ=255)
|
GTGTTAAAAGCACTGGGCATCAGTGCAACTGCACTTTCTTTGCCTCACGCTGCGCATGCCGATCTGCTTAGCTGGTTTAAAGGGAACGATCGCCCG > W3110S.gb/2041687‑2041782
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
