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 |
|
A1 F999 I1 R1
|
225 |
156.4 |
11709729 |
83.8% |
9812752 |
75.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,714,436 |
2 bp→GC |
coding (261‑262/660 nt) |
yiaD → |
putative outer membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,714,436 | 0 | C | G | 100.0%
| 356.7
/ NA
| 133 | N87K (AAC→AAG) | yiaD | putative outer membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base G (60/73); total (60/73) |
| * | NC_000913 | 3,714,437 | 0 | G | C | 99.2%
| 330.5
/ NA
| 132 | V88L (GTG→CTG) | yiaD | putative outer membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base C (58/73); minor base A (1/0); total (59/73) |
| Fisher's exact test for biased strand distribution p-value = 4.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 136 total aligned reads displayed.
TGATTGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAACGTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAATATGC > NC_000913/3714366‑3714506
||
aTTGGCGCGGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTAGATGGATGTGCAGGAAGCGAAGCTGcgcg < 2:4674253/76‑1 (MQ=255)
aTTGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGcgcg < 2:4444068/76‑1 (MQ=255)
ttGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGa < 2:719917/76‑1 (MQ=255)
tGGCGCAGCAGCAGGCGCAGCTCTGGGGGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGAc < 2:715594/76‑1 (MQ=255)
tGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTCCATGGATGTGCCGGAAGCGAAGCTGcgcgcc < 2:2261011/76‑3 (MQ=255)
tGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGAc > 1:4850976/1‑76 (MQ=255)
ggCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGGGACa > 2:2578619/1‑76 (MQ=255)
cgcAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGACGCTGCGCGACaaa > 2:2042788/1‑76 (MQ=255)
gcagcagcaGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACaaaa < 2:1726977/76‑1 (MQ=255)
gcagcagcaGGCGCAGCTCTGGGCGGCGGCGTTGGTTACTACATGGATGTGCAGGAAGCGAAGCTGCGCGACaaaa > 1:2859523/1‑76 (MQ=255)
agcagcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACAAGGATGTGGAGGAAGCGACGCTGCGCGGCaaaaac > 2:458713/1‑74 (MQ=255)
gcagcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgc > 1:1307599/1‑76 (MQ=255)
gcagcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgc > 1:2740729/1‑76 (MQ=255)
cagcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgcg < 1:1888121/76‑1 (MQ=255)
ngcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGAGAAAAAATtcgg > 1:2347168/2‑75 (MQ=255)
agcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgcgc > 1:4726199/1‑76 (MQ=255)
agcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgcgc < 1:3204734/76‑1 (MQ=255)
agcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgcgc < 1:5527334/76‑1 (MQ=255)
agcagGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATgcgc < 1:1100157/76‑1 (MQ=255)
cagGCGCAGCTCTGGGCGGCTNCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCgg > 1:4516472/1‑76 (MQ=255)
agGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGc > 1:1686904/1‑76 (MQ=255)
agGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGc > 2:2489906/1‑76 (MQ=255)
agGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGc < 2:3572198/76‑1 (MQ=255)
agGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGc > 2:4180984/1‑76 (MQ=255)
ggCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCa < 2:3857185/76‑1 (MQ=255)
gcgcAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCAc > 1:5822404/1‑76 (MQ=255)
cgcAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACt < 1:3785811/76‑1 (MQ=255)
cgcAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACt < 2:2928342/76‑1 (MQ=255)
cAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTgg < 1:763248/76‑1 (MQ=255)
cAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTgg < 1:4343306/76‑1 (MQ=255)
aGCTCTGGGCGGCGGCGTTGGTTATTCCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGgt < 1:3446726/76‑1 (MQ=255)
aGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGgt > 1:2937011/1‑76 (MQ=255)
ctctGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGgtgt < 2:3919976/76‑1 (MQ=255)
ctctGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGgtgt > 1:2727400/1‑76 (MQ=255)
tctGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGtt > 1:2759500/1‑76 (MQ=255)
tGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAg < 2:4544855/76‑1 (MQ=255)
ggggCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAg < 2:919446/75‑1 (MQ=255)
gcggcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCCCCGGTGTTAGCGt > 2:5270229/1‑76 (MQ=255)
gcggcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGt < 1:4326932/76‑1 (MQ=255)
gcggcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGt < 2:3869454/76‑1 (MQ=255)
gcggcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGt < 2:5466089/76‑1 (MQ=255)
ggcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTaa > 1:5747634/1‑76 (MQ=255)
gcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAc > 2:3238568/1‑76 (MQ=255)
gcggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAc > 1:4529230/1‑76 (MQ=255)
gggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAcc < 2:2545051/75‑1 (MQ=255)
cggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAcc < 2:1336058/76‑1 (MQ=255)
cggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAcc < 1:3665598/76‑1 (MQ=255)
cggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAcc < 2:3807000/76‑1 (MQ=255)
cggcgTTGGGTATTACATCGATGTGCAGGAAGAGACGCCGCGCGACAAAACGCGCGGCACTGGTCACAGCGTAAcc > 2:2411976/1‑76 (MQ=255)
ggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCTCGGCACTGGTGTTAGCGTAAccc > 1:5523188/1‑76 (MQ=255)
ggcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAAccc > 1:367104/1‑76 (MQ=255)
gcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCg < 1:411427/76‑1 (MQ=255)
gcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCg < 2:4409287/76‑1 (MQ=255)
gcgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCg < 1:2785507/76‑1 (MQ=255)
ggTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGc < 2:4842883/75‑1 (MQ=255)
cgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGc < 2:1027725/76‑1 (MQ=255)
cgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGc < 1:2028765/76‑1 (MQ=255)
cgTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGc < 1:2809486/76‑1 (MQ=255)
gTTGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCa < 2:3053606/76‑1 (MQ=255)
ttGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAg < 2:611777/76‑1 (MQ=255)
ttGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAg > 2:3145571/1‑76 (MQ=255)
tGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCg < 1:821469/72‑1 (MQ=255)
tGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGc < 2:2232800/76‑1 (MQ=255)
tGGTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGc < 1:1562759/76‑1 (MQ=255)
gggtattaCAGGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCg < 2:923024/73‑1 (MQ=255)
gTTATTACATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCgg < 1:4345038/76‑1 (MQ=255)
gTTATGACAGGGATGGGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCgg < 2:5757478/76‑1 (MQ=255)
ttattaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCggg < 2:2349928/76‑1 (MQ=255)
ttattaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCggg < 2:4850975/76‑1 (MQ=255)
ttattaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCggg > 1:3572894/1‑76 (MQ=255)
ttattaCATGGATATGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCggg < 1:2190019/76‑1 (MQ=255)
tattaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCgggg > 2:4777950/1‑76 (MQ=255)
ttaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGAt < 2:2225122/76‑1 (MQ=255)
ttaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGAt < 1:3847316/76‑1 (MQ=255)
ttaCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGCGTTAGCGGCACCCGCAGCggggct > 2:410591/1‑74 (MQ=255)
taCGTGGATGTGCAGGAAGCGAAGCCGCGCGCCAAAATGCGCGGCGCTGGTGTTAGCGTATCCCGCAGCGGGGATa < 2:1762506/76‑1 (MQ=255)
taCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGGGTTAGCGGCACCCGCAGCggggcga > 2:450876/1‑73 (MQ=255)
aCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATaa > 2:1967431/1‑76 (MQ=255)
aCATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATaa < 1:3521683/76‑1 (MQ=255)
cATGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAAc > 1:2013242/1‑76 (MQ=255)
tGGATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACAt > 2:2801262/1‑76 (MQ=255)
tGGAGGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACAt < 2:543019/76‑1 (MQ=255)
gggATGTGCGGGCAGCGAAGCTTCGCGACAAAATGCGCGTCACTGGTGTTAGCGTCACCCGCAGCGTGGATAACAt < 2:1391089/75‑1 (MQ=255)
gATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTa > 1:3773489/1‑76 (MQ=255)
gATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTa > 1:1401890/1‑76 (MQ=255)
gATGTGCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTa < 1:4158002/76‑1 (MQ=255)
tgtgCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATc > 1:5485695/1‑76 (MQ=255)
tgtgCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATc > 2:3377378/1‑76 (MQ=255)
gtgCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATcc < 2:5747633/76‑1 (MQ=255)
gCAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTc > 2:3065917/1‑76 (MQ=255)
cAGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGGTAGCGTAACCCGCAGCGGGGATACAATTATCCCCa > 2:5547530/1‑76 (MQ=255)
aGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCaa > 1:565387/1‑76 (MQ=255)
aGGAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCaa < 2:4146790/76‑1 (MQ=255)
ggAAGCGAAGCTGCGCGACACAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAat < 1:1744881/76‑1 (MQ=255)
ggAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAat < 2:5198356/76‑1 (MQ=255)
ggAAGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAat < 1:3795625/76‑1 (MQ=255)
gaagcgaagcTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAata > 1:4472492/1‑76 (MQ=255)
gaagcgaagcTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGAGGGGATAACATTATCCTCAata > 1:2497395/1‑76 (MQ=255)
aaGCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAatat > 2:5177655/1‑76 (MQ=255)
gCGAAGCTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAATATGc < 2:4299403/76‑1 (MQ=255)
||
TGATTGGCGCAGCAGCAGGCGCAGCTCTGGGCGGCGGCGTTGGTTATTACATGGATGTGCAGGAAGCGAACGTGCGCGACAAAATGCGCGGCACTGGTGTTAGCGTAACCCGCAGCGGGGATAACATTATCCTCAATATGC > NC_000913/3714366‑3714506
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
