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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
346,932 |
T→C |
52.0% |
Y227C (TAC→TGC) |
ybbO ← |
predicted oxidoreductase with NAD(P)‑binding Rossmann‑fold domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 346,932 | 0 | T | C | 52.0%
| 0.6
/ 43.0
| 52 | Y227C (TAC→TGC) | ybbO | predicted oxidoreductase with NAD(P)‑binding Rossmann‑fold domain |
| Reads supporting (aligned to +/- strand): ref base T (12/13); new base C (7/20); total (19/33) |
| Fisher's exact test for biased strand distribution p-value = 1.50e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.65e-01 |
TTCGGCTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGCCGGGATTTTCGACTGGTTT > minE/346903‑347000
|
ttCGGCTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGt < 1:1600141/54‑1 (MQ=255)
ttCGGCTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGt < 1:1606600/54‑1 (MQ=255)
ttCGGCTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAgcgg > 1:2234890/1‑69 (MQ=255)
ttCGGCTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAgcgg > 1:409230/1‑69 (MQ=255)
ttCGGCTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAgcgg > 1:100794/1‑69 (MQ=255)
ttCGGCTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAgcgg > 1:413252/1‑69 (MQ=255)
ttCGGCTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAgcgg > 1:1318239/1‑69 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGggcggc < 1:2962193/69‑1 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGggcggc < 1:3076560/69‑1 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGggcggc < 1:2118639/69‑1 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGggcggc < 1:1966882/69‑1 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGggcggc < 1:2323055/69‑1 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGggcggc < 1:1852809/69‑1 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGggcggc < 1:1247461/69‑1 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGggcggc < 1:616847/69‑1 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGggcggc < 1:691241/69‑1 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGggcggc < 1:2493101/69‑1 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGggcggc < 1:1154426/69‑1 (MQ=255)
cTTCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTT‑CGGTCCCAACGTAAAGCGGgcggcg < 1:530892/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGTTCCCAACGTAAAGCGGgcggcg < 1:1838553/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:2969644/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:2869927/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg > 1:2473777/1‑69 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg > 1:3041730/1‑69 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg > 1:44408/1‑69 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:476639/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:604670/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg > 1:672423/1‑69 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:792759/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:965883/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:1926541/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:1115438/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:1177022/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:1205063/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:1244777/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg > 1:1613798/1‑69 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:1733536/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:187028/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:2609368/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg > 1:214049/1‑69 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg > 1:2142402/1‑69 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:2257716/69‑1 (MQ=255)
ttCTCGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:243324/69‑1 (MQ=255)
tctcGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:3262494/68‑1 (MQ=255)
tctcGCTAATAAAAGCATGGCGCACTTTGTCGACCACCGCTTCCGGTCCCAACGTAAAGCGGgcggcg < 1:652614/68‑1 (MQ=255)
cGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGc > 1:3066401/1‑69 (MQ=255)
cGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGc > 1:2340329/1‑69 (MQ=255)
cGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGc > 1:2814209/1‑69 (MQ=255)
aaaaGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGCCGGGAtt > 1:1801472/1‑69 (MQ=255)
aaaaGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGCCGGGAtt > 1:515492/1‑69 (MQ=255)
aaaaGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGCCGGGAtt > 1:2878208/1‑69 (MQ=255)
aaaaGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGCCGGGAtt > 1:1192052/1‑69 (MQ=255)
tACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGCCGGGATTTTCGACTGGttt < 1:3162431/69‑1 (MQ=255)
tACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGCCGGGATTTTCGACTGGttt < 1:780959/69‑1 (MQ=255)
tACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGCCGGGATTTTCGACTGGttt < 1:2536551/69‑1 (MQ=255)
|
TTCGGCTTCTCGCTAATAAAAGCATGGCGTACTTTGTCCACCACCGCTTCCGGTCCCAACGTAAAGCGGGCGGCGATGCCGGGATTTTCGACTGGTTT > minE/346903‑347000
|
| 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
