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 |
|
A14 F1 I2 R1
|
70 |
59.9 |
2639336 |
94.5% |
2494172 |
113.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,532,523 |
(A)7→8 |
intergenic (‑84/‑295) |
yhgE ← / → pck |
DUF4153 family putative inner membrane protein/phosphoenolpyruvate carboxykinase [ATP] |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,532,516 | 1 | . | A | 98.2%
| 195.0
/ ‑3.7
| 56 | intergenic (‑77/‑302) | yhgE/pck | DUF4153 family putative inner membrane protein/phosphoenolpyruvate carboxykinase [ATP] |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base A (26/29); total (27/29) |
| Fisher's exact test for biased strand distribution p-value = 4.82e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.64e-01 |
ATCCGGTAGCAATCATCCCCCAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATC‑AAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGATTTAACCTTTTGAGAACATTTTCCAC > NC_000913/3532385‑3532646
|
aTCCGGTAGCAATCATCCCCCAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATC‑aaa‑aaaa > 1:1026368/1‑139 (MQ=255)
aTCCGGTAGCAATCATCCCCCAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATC‑aaa‑aaaa < 1:1275394/139‑1 (MQ=255)
cGGTAGCAATCATCCCCCAGCGTTTTGCGGGTGAAAGTTCAACGTTATCCATGTTAGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATC‑aaa‑aaaaagt < 1:1086186/139‑4 (MQ=255)
gTAGCAATCATCCCCCAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATC‑aaa‑aaaaagtta > 2:142483/1‑134 (MQ=255)
tAGCAATCATCCCCCAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAg < 2:49034/139‑1 (MQ=255)
tAGCAATCATCCCCCAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAg > 1:1318292/1‑139 (MQ=255)
atcatcCCCCAGCGTGTTGCGGATGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCgtgg < 2:845411/139‑1 (MQ=255)
tcatcCCCCAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCgtggt < 1:553553/139‑1 (MQ=255)
cccccAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAAt < 2:1067773/139‑1 (MQ=255)
cccccAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATC‑aaa‑aaaaagt < 2:492652/126‑4 (MQ=255)
cccccAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATC‑aaa‑aaaaagt > 1:492652/1‑123 (MQ=255)
cccAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCg > 2:821570/1‑139 (MQ=255)
ccAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGa > 2:464711/1‑139 (MQ=255)
cAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGAt < 2:1318292/139‑1 (MQ=255)
gtTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGGAGATAAACAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTa < 1:1176251/139‑1 (MQ=255)
gtTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTa > 2:1176251/1‑139 (MQ=255)
gTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTg > 2:1259023/1‑139 (MQ=255)
cAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCAt < 2:356603/139‑1 (MQ=255)
cAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCAt < 2:615910/139‑1 (MQ=255)
tCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATttca > 1:274991/1‑139 (MQ=255)
tCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATttca > 1:874450/1‑139 (MQ=255)
gTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAAtt < 2:158518/131‑1 (MQ=255)
gTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAAtt > 1:158518/1‑131 (MQ=255)
ttGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAgg > 1:1031389/1‑139 (MQ=255)
aTCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCg > 1:112393/1‑139 (MQ=255)
gAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTcc < 2:759754/139‑1 (MQ=255)
aTCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCAc < 2:960812/139‑1 (MQ=255)
tCAAAAGGTTGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACt < 1:649352/139‑1 (MQ=255)
tCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACt < 1:1259023/139‑1 (MQ=255)
tCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACt < 1:946771/139‑1 (MQ=255)
aaaGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTcac > 2:480502/1‑139 (MQ=255)
ggTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGt < 2:828099/90‑1 (MQ=255)
ggTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGt > 1:828099/1‑90 (MQ=255)
ggTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTc > 2:1107983/1‑139 (MQ=255)
ttAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTccc < 1:464711/139‑1 (MQ=255)
ttATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCa > 2:769275/1‑139 (MQ=255)
cGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGaa < 1:950108/107‑1 (MQ=255)
cGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGaa > 2:950108/1‑107 (MQ=255)
cATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACt < 2:1237692/117‑1 (MQ=255)
cATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACt > 1:1237692/1‑117 (MQ=255)
tCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAAct < 1:821570/139‑2 (MQ=255)
tCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAAcc < 2:274991/139‑1 (MQ=255)
tCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAAcc > 2:372421/1‑139 (MQ=255)
ccGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAAt < 1:682352/60‑1 (MQ=255)
ccGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAAt > 2:682352/1‑60 (MQ=255)
ccGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCa < 1:1107983/139‑1 (MQ=255)
ccGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCa > 1:1234430/1‑139 (MQ=255)
gtaTTTTGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGATTTAAcc > 2:347578/1‑139 (MQ=255)
ttttGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGAttt > 1:129224/1‑132 (MQ=255)
ttttGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGAttt < 2:129224/132‑1 (MQ=255)
ttttGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGATTTAACCttt > 1:842397/1‑139 (MQ=255)
tGCTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATGTGCATCAATttcatt < 1:878530/80‑1 (MQ=255)
tGCTTTTTTCAGAAAATAAGCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATttcatt > 2:878530/1‑80 (MQ=255)
cTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAAcc > 2:765380/1‑120 (MQ=255)
cTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAAcc < 1:765380/120‑1 (MQ=255)
cTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGATTTAACCTTTTgaga < 1:142483/139‑1 (MQ=255)
cTTTTTTCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGATTTAACCTTTTgaga > 2:1064862/1‑139 (MQ=255)
cTTTTTTCAGAAAATAATC‑AAAGAAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGATTTAACCTTTTgaga > 1:525938/1‑139 (MQ=255)
tttttCAGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGATTTAACCTTTTGAGAAc > 2:1075828/1‑139 (MQ=255)
aGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGATTTAACCTTTTGAGAACATTTTc < 2:112393/139‑1 (MQ=255)
aGAAAATAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGATTTAACCTTTTGAGAACATTTTc < 2:842397/139‑1 (MQ=255)
aaaTAATCAAAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGATTTAACCTTTTGAGAACATTTTCcac < 1:372421/139‑1 (MQ=255)
|
ATCCGGTAGCAATCATCCCCCAGCGTGTTGCGGGTGAAAGTTCAACGTTATCCATGTTGGTTATCCAGAATCAAAAGGTGGGTTAATTATCGCATCCGGGCAGTAGTATTTTGCTTTTTTCAGAAAATAATC‑AAA‑AAAAGTTAGCGTGGTGAATCGATACTTTACCGGTTGAATTTGCATCAATTTCATTCAGGAATGCGATTCCACTCACAATATTCCCGCCATATAAACCAAGATTTAACCTTTTGAGAACATTTTCCAC > NC_000913/3532385‑3532646
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
