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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,528,968 |
A→G |
74.5% |
L242P (CTA→CCA) |
yjhH ← |
predicted lyase/synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,528,968 | 0 | A | G | 74.5%
| 83.4
/ 27.3
| 47 | L242P (CTA→CCA) | yjhH | predicted lyase/synthase |
| Reads supporting (aligned to +/- strand): ref base A (10/2); new base G (24/11); total (34/13) |
| Fisher's exact test for biased strand distribution p-value = 4.64e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACTGCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTAGATGCCGACG > W3110S.gb/4528900‑4529033
|
acTGCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTagtggt > 1:2083930/1‑71 (MQ=255)
cTGCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGtt > 1:2812173/1‑71 (MQ=255)
gCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGtttt > 1:1760252/1‑71 (MQ=255)
gCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGtttt > 1:2376424/1‑71 (MQ=255)
gCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGtttt > 1:2692160/1‑71 (MQ=255)
gCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGtttt > 1:2169991/1‑71 (MQ=255)
gCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGtttt > 1:2885474/1‑71 (MQ=255)
gCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGtttt > 1:2900586/1‑71 (MQ=255)
gCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGtttt > 1:1453985/1‑71 (MQ=255)
gCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGtttt > 1:1217240/1‑71 (MQ=255)
aTGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGtttttt < 1:861523/71‑1 (MQ=255)
cTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTAtt > 1:1527782/1‑71 (MQ=255)
cTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTAtt > 1:2702742/1‑71 (MQ=255)
tATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTAt < 1:742802/67‑1 (MQ=255)
tATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTAt < 1:321330/67‑1 (MQ=255)
tGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAg > 1:3108565/1‑67 (MQ=255)
tGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAg > 1:128253/1‑67 (MQ=255)
aTCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAGCGTCGc < 1:1290269/71‑1 (MQ=255)
gagaCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCTCAGCGGt > 1:879198/1‑71 (MQ=255)
gagaCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGt > 1:1818681/1‑71 (MQ=255)
gagaCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGt > 1:932418/1‑71 (MQ=255)
agaCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTc > 1:1110297/1‑71 (MQ=255)
agaCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTc > 1:2114729/1‑71 (MQ=255)
gaCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCg > 1:3566971/1‑71 (MQ=255)
gaCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCg > 1:3564108/1‑71 (MQ=255)
gaCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCg > 1:2815641/1‑71 (MQ=255)
gaCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCg > 1:3083454/1‑71 (MQ=255)
gaCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCg > 1:202998/1‑71 (MQ=255)
aCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGc < 1:3655424/71‑1 (MQ=255)
aCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGc < 1:269861/71‑1 (MQ=255)
aaaCGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGc > 1:905900/1‑69 (MQ=255)
aaaCGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGc > 1:3234020/1‑69 (MQ=255)
aaCGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAg < 1:2097486/71‑1 (MQ=255)
gtTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTc > 1:2356500/1‑51 (MQ=255)
gtTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGcc > 1:3564922/1‑71 (MQ=255)
tttCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGttttt < 1:2587070/39‑1 (MQ=255)
tttCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGttttt < 1:2362188/39‑1 (MQ=255)
tCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGAt > 1:672595/1‑64 (MQ=255)
tCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGAt > 1:523802/1‑64 (MQ=255)
tCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGAt > 1:534760/1‑64 (MQ=255)
gAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCAc < 1:2386307/71‑1 (MQ=255)
ggCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGcc < 1:2599287/71‑1 (MQ=255)
aaTAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGgcgc > 1:104026/1‑71 (MQ=255)
aaTAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTAGCAGCGGTCGCCAGATCGCCTTCACGCCAGgcgc > 1:1612882/1‑71 (MQ=255)
gCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCgg > 1:2894361/1‑69 (MQ=255)
gTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCa < 1:1695650/39‑1 (MQ=255)
ttGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCa < 1:2203696/38‑1 (MQ=255)
tGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTAGATGCCGAc > 1:158231/1‑71 (MQ=255)
tagtggTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTAGATGCCGACg < 1:1482302/70‑1 (MQ=255)
|
ACTGCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTAGATGCCGACG > W3110S.gb/4528900‑4529033
|
| 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
