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 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
746,293 |
C→T |
39.3% |
A236V (GCC→GTC) |
ybgL → |
predicted lactam utilization protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 746,293 | 0 | C | T | 39.3%
| 25.4
/ 41.3
| 39 | A236V (GCC→GTC) | ybgL | predicted lactam utilization protein |
| Reads supporting (aligned to +/- strand): ref base C (6/17); new base T (12/3); total (19/20) |
| Fisher's exact test for biased strand distribution p-value = 2.29e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.29e-01 |
CTGCATGGCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCACCATGCCTG > W3110S.gb/746235‑746363
|
ctgcATGGCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGAt < 1:968437/71‑1 (MQ=255)
ctgcATGGCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGAt < 1:960119/71‑1 (MQ=255)
ctgcATGGCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGAt < 1:4126/71‑1 (MQ=255)
ctgcATGGCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGAt < 1:852570/71‑1 (MQ=255)
ctgcATGGCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGAt < 1:1812894/71‑1 (MQ=255)
ctgcATGGCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGAt < 1:5837/71‑1 (MQ=255)
ctgcATGGCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGAt < 1:1554394/71‑1 (MQ=255)
ctgcATGGCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGAt < 1:774509/71‑1 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:446481/1‑71 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:44140/1‑71 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:490197/1‑71 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:1899612/1‑71 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:1854196/1‑71 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:683122/1‑71 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:772623/1‑71 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:1406291/1‑71 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:890587/1‑71 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:942225/1‑71 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:1221627/1‑71 (MQ=255)
gCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTc > 1:1053630/1‑71 (MQ=255)
cGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGATTGTTGTCGCAGCAt < 1:841856/71‑1 (MQ=255)
ggCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGTTTGTTGTCGCAGCATAACCCCGATtaa > 1:1482879/1‑71 (MQ=255)
tCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGAt < 1:1759252/40‑1 (MQ=255)
cgcccgccGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAg < 1:985027/70‑1 (MQ=255)
cgcccgccGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAg < 1:1328247/70‑1 (MQ=255)
cgcccgccGACTACGCTCTGCATTTGTCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAg < 1:449384/70‑1 (MQ=255)
cgcccgccGACTACGCTCTGCATTTGCCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATtaa > 1:571403/1‑65 (MQ=255)
cATTTGCCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCAc < 1:1460690/69‑1 (MQ=255)
cATTTGCCGAAAAAGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGata > 1:1092175/1‑65 (MQ=255)
cATTTGCCGAAAAAGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGata > 1:1656249/1‑65 (MQ=255)
cATTTGCCGAAAAAGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGata > 1:592052/1‑65 (MQ=255)
cATTTGCCGAAAAAGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGata > 1:1760895/1‑65 (MQ=255)
cATTTGACGAAAAAGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAg > 1:1749475/1‑61 (MQ=255)
aTTTGCCGAAAAGGGGATTTTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCACCAt < 1:1125846/71‑1 (MQ=255)
aTTTGCCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCACCAt < 1:6588/71‑1 (MQ=255)
aTTTGCCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCACCAt < 1:1360833/71‑1 (MQ=255)
aTTTGCCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCACCAt < 1:461946/71‑1 (MQ=255)
aTTTGCCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATAACCAt < 1:530629/71‑1 (MQ=255)
tttGCCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCACCAt < 1:200236/70‑1 (MQ=255)
ccGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCACCATGCCTg < 1:1796293/71‑1 (MQ=255)
ccGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCACCATGCCTg < 1:1389318/71‑1 (MQ=255)
ccGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCACCATGCCTg < 1:884443/71‑1 (MQ=255)
ccGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCACCATGCCTg < 1:1203561/71‑1 (MQ=255)
|
CTGCATGGCGACGGCGAGCACGCACTGGCGTTCGCCCGCCGACTACGCTCTGCATTTGCCGAAAAGGGGATTGTTGTCGCAGCATAACCCCGATTAATAAAGAATGAAAAAAGGATATCACCATGCCTG > W3110S.gb/746235‑746363
|
| 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
