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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,458,727 |
A→G |
25.0% |
E195G (GAA→GGA) |
paaE → |
predicted multicomponent oxygenase/reductase subunit for phenylacetic acid degradation |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,458,727 | 0 | A | G | 25.0%
| 76.0
/ 26.9
| 44 | E195G (GAA→GGA) | paaE | predicted multicomponent oxygenase/reductase subunit for phenylacetic acid degradation |
| Reads supporting (aligned to +/- strand): ref base A (13/20); new base G (5/6); total (18/26) |
| Fisher's exact test for biased strand distribution p-value = 7.38e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGTTGTTGTGCATTTTCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAATTTTCGTCTTTATGATGAGGCATTTATTTG > W3110S.gb/1458660‑1458790
|
cAGTTGTTGTGCATTTTCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGgaa < 1:2348103/70‑1 (MQ=255)
cAGTTGTTGTGCATTTTCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGaaa < 1:2016214/70‑1 (MQ=255)
gttgttGTGCATTTTCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAAt < 1:3448337/71‑1 (MQ=255)
gtgCATTTTCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGt > 1:3841666/1‑71 (MQ=255)
cATTTTCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGGAAAATTACAGTCa < 1:4573103/70‑1 (MQ=255)
cATTTTCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGGAAAATTACAGTCa < 1:3661342/70‑1 (MQ=255)
cATTTTCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGGAAAATTACAGTCAc < 1:1928955/71‑1 (MQ=255)
aTTTTCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACt > 1:3708626/1‑71 (MQ=255)
ttttCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACtt < 1:2131647/71‑1 (MQ=255)
ttttCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACtt > 1:1514338/1‑71 (MQ=255)
tttCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACTTg > 1:765892/1‑71 (MQ=255)
ttCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCAGTTg < 1:3809035/70‑1 (MQ=255)
ttCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACTTgg > 1:826650/1‑71 (MQ=255)
gtcagGGAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCa < 1:1530100/62‑1 (MQ=255)
gtcagGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGGAAAATTACAGTc < 1:1955431/61‑1 (MQ=255)
gtcagGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGGAAAATTACAGTc < 1:2728193/61‑1 (MQ=255)
gtcagGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGGAAAATTACAGTCAc < 1:4343176/63‑1 (MQ=255)
gtcagGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCa < 1:3169858/62‑1 (MQ=255)
cagGAACCCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGGAAAATTACAGTCAc > 1:842741/1‑61 (MQ=255)
agGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACTTgg > 1:2887447/1‑64 (MQ=255)
agGAAACCCTCGACAGAGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCg > 1:4608998/1‑71 (MQ=255)
gAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCt < 1:3276422/71‑1 (MQ=255)
aaCCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGGAAAATTACAGTCACTTGGGGCCTCGCTCa > 1:755142/1‑71 (MQ=255)
ccTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGGAAAATTACAGTCACTTGGGGCCTCGCTCAt > 1:1478249/1‑69 (MQ=255)
cTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGaaa < 1:3081959/40‑1 (MQ=255)
tCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACTTg > 1:2074366/1‑54 (MQ=255)
tCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACTTg > 1:4060959/1‑54 (MQ=255)
cGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAAtt > 1:4178132/1‑71 (MQ=255)
gACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAAttt > 1:3569332/1‑71 (MQ=255)
cGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTa < 1:1137432/37‑1 (MQ=255)
cGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTa < 1:29115/37‑1 (MQ=255)
cGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTa < 1:4649164/37‑1 (MQ=255)
cGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTa < 1:4655251/37‑1 (MQ=255)
tGCTTCACGGGCGTATTGACGGTGGAAAATTACAGTCACTTGGGGCCTCGCTCATAAATTTTCGTCTTTat > 1:2068559/1‑71 (MQ=255)
cTTCACGGGCGTATTGACGGTGGAAAATTACAGTCACTTGGGGCCTCg > 1:606061/1‑48 (MQ=255)
cACGGGCGTATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAATTTTCGTCTTTatgatg < 1:5071966/70‑1 (MQ=255)
cACGGGCGTATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAATTTTCGTCTTTatgat < 1:129888/69‑1 (MQ=255)
cGTATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAATTTTCGTCTTTATGATGAGGCatt < 1:1076760/71‑1 (MQ=255)
tATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCAt < 1:1893315/42‑1 (MQ=255)
tATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCAt < 1:738657/42‑1 (MQ=255)
tATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCAt < 1:2497205/42‑1 (MQ=255)
ttGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAATTTTCGTCTTTATGATGAg > 1:4858143/1‑62 (MQ=255)
gACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAATTTTCGTCTTTATGATGAGGCATTTATTtg > 1:1309754/1‑71 (MQ=255)
aCGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAATTTTCGTCTTTATGATGAGGCATTTATTtg < 1:2007147/70‑1 (MQ=255)
aCGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAATTTTCGTCTTTATGATGAGGCATTTATTtg < 1:1027384/70‑1 (MQ=255)
ggTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAATTTTCGTCTTTATGATGAGGCatttattt < 1:1697420/67‑1 (MQ=255)
ggTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAATTTTCGTCTTTATGATGAGGCatttattt < 1:3692065/67‑1 (MQ=255)
|
CAGTTGTTGTGCATTTTCAGTCAGGAAACCCTCGACAGCGATCTGCTTCACGGGCGTATTGACGGTGAAAAATTACAGTCACTTGGGGCCTCGCTCATTAATTTTCGTCTTTATGATGAGGCATTTATTTG > W3110S.gb/1458660‑1458790
|
| 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
