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 |
381,851 |
A→C |
77.8% |
G88G (GGT→GGG) |
yaiF ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 381,851 | 0 | A | C | 77.8%
| 136.5
/ 16.3
| 49 | G88G (GGT→GGG) | yaiF | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (6/5); new base C (18/20); total (24/25) |
| Fisher's exact test for biased strand distribution p-value = 7.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAG > W3110S.gb/381790‑381912
|
gTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGAccc < 1:97028/65‑1 (MQ=255)
tCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATa < 1:1386314/70‑1 (MQ=255)
tCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATa < 1:2532733/70‑1 (MQ=255)
tataGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAAt < 1:2986022/61‑1 (MQ=255)
taGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCAt > 1:2878071/1‑70 (MQ=255)
taGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCAt > 1:2207176/1‑70 (MQ=255)
gggCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACa < 1:3661647/71‑1 (MQ=255)
gCAAATCCAATTGCCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa < 1:2878031/71‑1 (MQ=255)
gCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa < 1:422902/71‑1 (MQ=255)
gCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa < 1:3122229/71‑1 (MQ=255)
gCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa < 1:3261314/71‑1 (MQ=255)
gCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa < 1:821012/71‑1 (MQ=255)
cAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa < 1:1117612/70‑1 (MQ=255)
cAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa > 1:579692/1‑70 (MQ=255)
cAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa > 1:547197/1‑70 (MQ=255)
cAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa > 1:3443192/1‑70 (MQ=255)
cAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACaaa > 1:1853214/1‑70 (MQ=255)
aTCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATAc < 1:1951870/70‑1 (MQ=255)
tCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACgg > 1:402024/1‑71 (MQ=255)
ccAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACggg > 1:3385580/1‑71 (MQ=255)
ccAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAAAACggg > 1:3065083/1‑71 (MQ=255)
tCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACaaa < 1:2317925/54‑1 (MQ=255)
tCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACaaa < 1:373303/54‑1 (MQ=255)
aGGCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGa > 1:2502309/1‑70 (MQ=255)
aGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGa > 1:34511/1‑70 (MQ=255)
aGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGa > 1:3266716/1‑70 (MQ=255)
aGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGa > 1:501033/1‑70 (MQ=255)
aGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGa > 1:101094/1‑70 (MQ=255)
gCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATa > 1:1321422/1‑52 (MQ=255)
gCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATa > 1:306589/1‑52 (MQ=255)
gCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATa > 1:253865/1‑52 (MQ=255)
gCAGTTTGCGCCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATa > 1:226793/1‑52 (MQ=255)
tttGCGCCAATCACTACCGGCCCCTGAATAACGGCAcc < 1:1365220/38‑1 (MQ=255)
cgcCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTc < 1:1716378/70‑1 (MQ=255)
cgcCAATCACTACCGGCCCCTGAATAACGGCACCATCACAAATACGGGTATTCGCGCCGATAACAACTTc < 1:93533/70‑1 (MQ=255)
gcCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaaca < 1:173255/64‑1 (MQ=255)
gcCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaaca < 1:2366128/64‑1 (MQ=255)
gcCAATCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaaca < 1:1968386/64‑1 (MQ=255)
tCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaaca < 1:2590399/59‑1 (MQ=255)
tCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaaca < 1:1217930/59‑1 (MQ=255)
tCACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaaca < 1:2037795/59‑1 (MQ=255)
cagtACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAg > 1:1589930/4‑71 (MQ=255)
cACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAg > 1:3000804/1‑71 (MQ=255)
cACTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTAGCGCCGATAACAACTTCACCTGCAg > 1:2504602/1‑71 (MQ=255)
aCTACCGGCCCCTGAATAACGGCACCATGCCAAATACGGGTATTCGCGCCGATaacaac > 1:2891103/1‑59 (MQ=255)
aCTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATaacaac > 1:3333339/1‑59 (MQ=255)
cTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTc < 1:699763/61‑1 (MQ=255)
cTACCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTc < 1:1751003/61‑1 (MQ=255)
aCCGGCCCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCAc > 1:1845882/1‑61 (MQ=255)
|
GTCTGGAAATATAGGGGCAAATCCAATTACCTATCAGGCAGTTTGCGCCAATCACTACCGGACCCTGAATAACGGCACCATGACAAATACGGGTATTCGCGCCGATAACAACTTCACCTGCAG > W3110S.gb/381790‑381912
|
| 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
