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 |
1,417,873 |
T→C |
46.4% |
intergenic (+154/‑179) |
proL → / → narP |
tRNA‑Pro/DNA‑binding response regulator in two‑component regulatory system with NarQ or NarX |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,417,873 | 0 | T | C | 46.4%
| 5.0
/ 57.7
| 69 | intergenic (+154/‑179) | proL/narP | tRNA‑Pro/DNA‑binding response regulator in two‑component regulatory system with NarQ or NarX |
| Reads supporting (aligned to +/- strand): ref base T (21/16); new base C (19/13); total (40/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGTTTATTTTCTGTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGCCAAAGCGAACGACAAG > minE/1417806‑1417936
|
tGTTTATTTTCTGTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCtt < 1:182712/69‑1 (MQ=255)
tGTTTATTTTCTGTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCtt < 1:961976/69‑1 (MQ=255)
tGTTTATTTTCTGTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCtt < 1:255666/69‑1 (MQ=255)
tGTTTATTTTCTGTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCtt < 1:1507783/69‑1 (MQ=255)
tATTTTCTGTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTtg > 1:3040197/1‑66 (MQ=255)
tATTTTCTGTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTtg > 1:3036001/1‑66 (MQ=255)
gTTAACTGTTTAAAGAAATGCACAAGTTTTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt < 1:2651289/68‑1 (MQ=255)
gTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt < 1:997512/68‑1 (MQ=255)
gTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt < 1:378965/68‑1 (MQ=255)
gTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt < 1:1543678/68‑1 (MQ=255)
gTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt < 1:149982/68‑1 (MQ=255)
gTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCTGATGCaaa > 1:2388106/1‑69 (MQ=255)
gTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCTGATGCaaa > 1:241349/1‑69 (MQ=255)
tttAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGc > 1:1425833/1‑59 (MQ=255)
tttAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt > 1:2327422/1‑60 (MQ=255)
tttAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt > 1:1454744/1‑60 (MQ=255)
tttAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt > 1:2644543/1‑60 (MQ=255)
tttAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt > 1:1206197/1‑60 (MQ=255)
tttAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt > 1:444086/1‑60 (MQ=255)
tttAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt > 1:2497470/1‑60 (MQ=255)
tttAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt > 1:1659325/1‑60 (MQ=255)
tttAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt > 1:744757/1‑60 (MQ=255)
tttAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt > 1:1421690/1‑60 (MQ=255)
tttAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCt > 1:1447189/1‑60 (MQ=255)
aTGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCtt > 1:3170337/1‑69 (MQ=255)
aTGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCtt > 1:3088228/1‑69 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:2883561/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:1062048/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:2381909/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:2767082/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:2570565/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:2280032/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:1894688/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:448439/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:1742784/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:1704250/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:1538498/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:710039/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:1469810/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:1231192/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:1156899/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtata > 1:1130388/1‑68 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTtat > 1:2537528/1‑67 (MQ=255)
caAGTATTGTGATTGATTTTTTAGTTGTTTTTACTGATGAGaa > 1:2598475/1‑43 (MQ=38)
caAGTATTGTGATTGATTTTTTAGTTCTTTTTCCTGATGAGAAGCTGATGCAAAATTc > 1:1295429/1‑58 (MQ=255)
aTTGTGATTGATTTTTTAGTTGTTTTTCTTCATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGaaa < 1:2299206/69‑1 (MQ=255)
gtgATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAatg > 1:2928899/1‑69 (MQ=255)
gtgATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAatg > 1:1766278/1‑69 (MQ=255)
gtgATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAat < 1:2778686/68‑1 (MQ=255)
gtgATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAat < 1:953011/68‑1 (MQ=255)
ttttAGTTGTTTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGCCAAAg > 1:2664576/1‑68 (MQ=255)
ttttAGTTGTTTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGCCAAAg > 1:891167/1‑68 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:1077149/60‑1 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:838108/60‑1 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:1526760/60‑1 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:708440/60‑1 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:637016/60‑1 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:1769365/60‑1 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:3238542/60‑1 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:2326614/60‑1 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:2953859/60‑1 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:2863493/60‑1 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:2859707/60‑1 (MQ=255)
ttttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:282662/60‑1 (MQ=255)
tttAGTTGTTTTTCCTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAGatga < 1:2313789/59‑1 (MQ=255)
tgttTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGCCAAAGCGAACGAc < 1:2148687/69‑1 (MQ=255)
tgttTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGCCAAAGCGAACGAc < 1:3220619/69‑1 (MQ=255)
tgttTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGCCAAAGCGAACGAc < 1:312482/69‑1 (MQ=255)
tgttTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGCCAAAGCGAACGAc < 1:1363575/69‑1 (MQ=255)
tgttTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGCCAAAGCGAACGAc < 1:833865/69‑1 (MQ=255)
tgttTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGCCAAAGCGAACGAc < 1:2880603/69‑1 (MQ=255)
tttCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGCCAAAGCGAACGACAAg < 1:2462104/68‑1 (MQ=255)
tttCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGACAAAGCGAACGACAAg < 1:483228/68‑1 (MQ=255)
|
TGTTTATTTTCTGTTAACTGTTTAAAGAAATGCACAAGTATTGTGATTGATTTTTTAGTTGTTTTTCTTGATGAGAAGCTGATGCAAAATTCCGTCTTTATAATGAAAATGATGCCAAAGCGAACGACAAG > minE/1417806‑1417936
|
| 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
