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 F28 I3 R2
|
122 |
64.1 |
3058059 |
97.6% |
2984665 |
63.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
1,591,415 |
G→T |
K203N (AAG→AAT) |
yfeS → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,591,415 | 0 | G | T | 98.2%
| 158.3
/ ‑3.6
| 55 | K203N (AAG→AAT) | yfeS | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base T (23/31); total (23/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
TACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACGGTCAG > minE/1591356‑1591481
|
tACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCaa > 1:3042096/1‑71 (MQ=255)
tACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCaa > 1:2472876/1‑71 (MQ=255)
cGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAAt > 1:1588715/1‑70 (MQ=255)
cTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCAc > 1:1079883/1‑69 (MQ=255)
tGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAg > 1:1174246/1‑71 (MQ=255)
aTTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAgc < 1:1601716/69‑1 (MQ=255)
ggTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAgc > 1:106730/1‑65 (MQ=255)
tCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGtcatc < 1:2330334/71‑1 (MQ=255)
tCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGtcat > 1:1100386/1‑70 (MQ=255)
aGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAatat > 1:102929/1‑43 (MQ=255)
aGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGtcatca > 1:2089805/1‑70 (MQ=255)
ttAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCtt < 1:2850477/71‑1 (MQ=255)
tAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTa > 1:2270493/1‑71 (MQ=255)
aaaaGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGcat > 1:2933962/2‑68 (MQ=255)
aaaGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTa < 1:646976/70‑1 (MQ=255)
aaaGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTa < 1:2546270/70‑1 (MQ=255)
aaaGTCATGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTa < 1:2779084/70‑1 (MQ=255)
gTCATGGGTAAAATCTCCCATAAACTTAAAAatat > 1:2865133/1‑35 (MQ=255)
aTGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCt > 1:2261093/1‑62 (MQ=255)
aTGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGc < 1:1186060/68‑1 (MQ=255)
aTGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCaaa < 1:2585721/71‑1 (MQ=255)
aTGGGTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCaa > 1:142248/1‑70 (MQ=255)
ggTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTa < 1:2715510/45‑1 (MQ=255)
ggTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTa < 1:2828138/45‑1 (MQ=255)
ggTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTa < 1:114502/45‑1 (MQ=255)
ggTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAt < 1:2121851/71‑1 (MQ=255)
gTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTa < 1:734439/44‑1 (MQ=255)
gTAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAtt < 1:2704798/71‑1 (MQ=255)
tAAAATCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCtt < 1:1767549/58‑1 (MQ=255)
aaaaTCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAttct > 1:1930439/1‑71 (MQ=255)
aaaTCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAttctt > 1:902088/1‑71 (MQ=255)
aaaTCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAttct < 1:608253/70‑1 (MQ=255)
aaaTCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAttct < 1:611769/70‑1 (MQ=255)
aaTCTCCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAttcttc < 1:1826004/71‑1 (MQ=255)
tcCCATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAttcttc < 1:98702/67‑1 (MQ=255)
ccATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAAt < 1:545244/68‑1 (MQ=255)
ccATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAAt < 1:929364/68‑1 (MQ=255)
ccATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAAt < 1:2353562/68‑1 (MQ=255)
ccATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAAt < 1:1123477/68‑1 (MQ=255)
ccATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATggg < 1:2822895/71‑1 (MQ=255)
ccATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATggg > 1:2570542/1‑71 (MQ=255)
ccATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATggg > 1:1561292/1‑71 (MQ=255)
cATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGtcat > 1:2743022/1‑42 (MQ=255)
cATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATgggg > 1:2459427/1‑71 (MQ=255)
cATAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATggg > 1:1123557/1‑70 (MQ=255)
aTAAACTTAAAAATATGGGACTCAATGCACTAGCGCGt < 1:3047187/38‑1 (MQ=255)
tAAACTTAAAAATATGGGACTCAATGCACTAGCGCGtc < 1:1045840/38‑1 (MQ=255)
tAAACTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTa < 1:1904426/47‑1 (MQ=255)
ataCTTAAAAAGATGGGACTCAATGCACTAGCGCGTCTTAAGCTTa < 1:25735/44‑1 (MQ=255)
aaaCTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAAtt > 1:2969358/1‑57 (MQ=255)
aaaCTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAAt > 1:2482766/1‑64 (MQ=255)
aaCTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCt > 1:1101410/1‑43 (MQ=255)
cTTAAAAATATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACgg < 1:194531/71‑1 (MQ=255)
aaaaaTATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACGGTc < 1:1856938/70‑1 (MQ=255)
aaaaTATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACGGt < 1:1829063/68‑1 (MQ=255)
aaaTATGGGACTCAATGCACTAGCGCGTCATCAGc > 1:3023474/1‑35 (MQ=255)
aaaTATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACGGTCAg < 1:2082720/70‑1 (MQ=255)
|
TACGCAACTGCATTCGGTCAGATTAAAGTCATGGGTAAAATCTCCCATAAACTTAAAAAGATGGGACTCAATGCACTAGCGCGTCATCAGCTTACCGCAAAAATTCTTCAATGGGGTGACGGTCAG > minE/1591356‑1591481
|
| 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
