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 |
372,202 |
G→A |
53.3% |
R1050Q (CGG→CAG) |
entF → |
enterobactin synthase multienzyme complex component, ATP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 372,202 | 0 | G | A | 53.3%
| ‑1.1
/ 36.6
| 45 | R1050Q (CGG→CAG) | entF | enterobactin synthase multienzyme complex component, ATP‑dependent |
| Reads supporting (aligned to +/- strand): ref base G (3/18); new base A (15/9); total (18/27) |
| Fisher's exact test for biased strand distribution p-value = 1.90e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.72e-01 |
ATGGTCGCGTCAACTGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGCCCGACGCTGTTTT > minE/372141‑372261
|
aTGGTCGCGTCAACTGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTAt > 1:2230390/1‑68 (MQ=255)
aTGGTCGCGTCAACTGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTAt > 1:3239559/1‑68 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:197968/69‑1 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:2309926/69‑1 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:2306106/69‑1 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:281463/69‑1 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:2881767/69‑1 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:3121694/69‑1 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:2067988/69‑1 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:2034153/69‑1 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:1817343/69‑1 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:362101/69‑1 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:570380/69‑1 (MQ=255)
tGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCAt < 1:772583/69‑1 (MQ=255)
cAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCATTCTGc < 1:1727888/68‑1 (MQ=255)
cAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCATTCTGc < 1:388006/68‑1 (MQ=255)
aaCTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCATTCTGCCGt < 1:680813/69‑1 (MQ=255)
aaCTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCATTCTGCCGt < 1:1010944/69‑1 (MQ=255)
aaCTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCATTCTGCCGt < 1:101375/69‑1 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGt > 1:2308787/1‑55 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:3369180/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:946361/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:736375/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:833993/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:2673109/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:2663979/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:2412051/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:2199741/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:211849/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:2076057/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:2015204/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:112366/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTa > 1:1534047/1‑56 (MQ=255)
agaagaCAGCACCCAGCGCATGGGATTCGAAACCATTCTGCCGATGCGTGAAGGTa > 1:774415/1‑56 (MQ=255)
aagaCAGCACCCGGCGTATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGCCCGACGCtgt > 1:139486/1‑69 (MQ=255)
aCAGCACCCGGCGTATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGCCCGACGCtgtttt < 1:1034361/69‑1 (MQ=255)
cccAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGc < 1:455430/50‑1 (MQ=39)
cccAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGc < 1:1609220/50‑1 (MQ=39)
cccAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGc < 1:1341762/50‑1 (MQ=39)
cccAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGc < 1:732111/50‑1 (MQ=39)
cccAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGc < 1:1317809/50‑1 (MQ=39)
cccAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGc < 1:1751787/50‑1 (MQ=39)
cccAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGc < 1:2265164/50‑1 (MQ=39)
cccAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGc < 1:1121821/50‑1 (MQ=39)
cccAGCGCATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGc < 1:2285973/50‑1 (MQ=39)
|
ATGGTCGCGTCAACTGTCGCCAAACTGGCAACGATTATTGATGCTGAAGAAGACAGCACCCGGCGTATGGGATTCGAAACCATTCTGCCGTTGCGTGAAGGTAATGGCCCGACGCTGTTTT > minE/372141‑372261
|
| 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
