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 |
3,459,280 |
T→C |
33.3% |
E15G (GAA→GGA) |
secE ← |
preprotein translocase membrane subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,459,280 | 0 | T | C | 33.3%
| 49.3
/ 45.1
| 48 | E15G (GAA→GGA) | secE | preprotein translocase membrane subunit |
| Reads supporting (aligned to +/- strand): ref base T (15/17); new base C (12/4); total (27/21) |
| Fisher's exact test for biased strand distribution p-value = 7.52e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.20e-01 |
GCGATAAAGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGTT > W3110S.gb/3459213‑3459343
|
gcgATAAAGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCa < 1:386449/71‑1 (MQ=255)
gcgATAAAGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCa < 1:3404763/71‑1 (MQ=255)
cgATAAAGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTcc < 1:3801087/69‑1 (MQ=255)
gATAAAGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAgg < 1:4357972/71‑1 (MQ=255)
aaaGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTCCCAGGCcg > 1:2937002/1‑71 (MQ=255)
gCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCTTc > 1:5067171/1‑71 (MQ=255)
gCCGACAATCGCCACCAGGAGCAATGCAACCACAACGACACACTTCATCGCTCCCAGGCCGCGCCCGCTTc > 1:2435920/1‑71 (MQ=255)
ccGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTc < 1:362587/70‑1 (MQ=255)
aCAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTg < 1:4560914/71‑1 (MQ=255)
tCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAg > 1:5132015/1‑69 (MQ=255)
caccaGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCgg < 1:4114313/71‑1 (MQ=255)
caccaGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCgg < 1:1719125/71‑1 (MQ=255)
accaGGAGCAATGCCACCACAACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCgg > 1:4142131/1‑70 (MQ=255)
ccaGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCcgcg < 1:268399/49‑1 (MQ=255)
caGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTAt < 1:4698300/71‑1 (MQ=255)
aGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTAtt > 1:3832578/1‑71 (MQ=255)
gAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCg > 1:1893365/1‑71 (MQ=255)
gAGCAATGCCACCACAACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCtt < 1:4607513/52‑1 (MQ=255)
gAGCAATGCCACCACAACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCtt < 1:4185278/52‑1 (MQ=255)
gCAATGCCACCACAACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCa > 1:3037216/1‑71 (MQ=255)
aaTGCCACCACAACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTa < 1:3213220/63‑1 (MQ=255)
tGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTg < 1:1658051/51‑1 (MQ=255)
tGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTg < 1:1895629/51‑1 (MQ=255)
tGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAg > 1:1670638/1‑53 (MQ=255)
tGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAACTTCGGTATTCGCACTCa < 1:4821060/71‑1 (MQ=255)
tGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCACGCTTCCTTGAGCTTCGGTATTCGCACTCa > 1:3467861/1‑71 (MQ=255)
gCCACCACAACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCa > 1:3716435/1‑70 (MQ=255)
ccaccaCAACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCAt > 1:3970578/1‑70 (MQ=255)
acaACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCTTc < 1:1808146/40‑1 (MQ=255)
caACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAaaccaa > 1:1773206/1‑71 (MQ=255)
caACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAaaccaa > 1:4340333/1‑71 (MQ=255)
caACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAaaccaa > 1:2002622/1‑71 (MQ=255)
caACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCa > 1:646799/1‑59 (MQ=255)
caACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCa > 1:1924642/1‑59 (MQ=255)
aaCGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTc < 1:4726389/48‑1 (MQ=255)
aaCGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTc < 1:1270511/48‑1 (MQ=255)
aCGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAaaccaacc > 1:5121262/1‑71 (MQ=255)
gACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGa > 1:2482804/1‑40 (MQ=255)
gACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTg > 1:4169478/1‑71 (MQ=255)
aCTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCa > 1:2122412/1‑50 (MQ=255)
tCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGt > 1:2814160/1‑71 (MQ=255)
tCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGt > 1:4650708/1‑71 (MQ=255)
aTCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGtt < 1:2726619/70‑1 (MQ=255)
tCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCa < 1:1683731/48‑1 (MQ=255)
cGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTcc > 1:626062/1‑40 (MQ=255)
gCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTAtt > 1:2774217/1‑38 (MQ=255)
gCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTAtt > 1:2311119/1‑38 (MQ=255)
gCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCa > 1:3509396/1‑46 (MQ=255)
|
GCGATAAAGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGTT > W3110S.gb/3459213‑3459343
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
