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 |
|
A11 F212 I1 R1
|
174 |
80.0 |
3892211 |
96.7% |
3763768 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,563,518 |
(A)5→6 |
intergenic (+401/‑74) |
yffP → / → yffQ |
CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,563,513 | 1 | . | A | 81.9%
| 214.4
/ 42.9
| 72 | intergenic (+396/‑79) | yffP/yffQ | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| Reads supporting (aligned to +/- strand): ref base . (7/6); new base A (26/33); total (33/39) |
| Fisher's exact test for biased strand distribution p-value = 5.54e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.58e-01 |
GGTGAATTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTAATCG > NC_000913/2563415‑2563607
|
ggTGAATTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑a > 1:793624/1‑100 (MQ=255)
tGAATTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑a‑aa > 2:823231/1‑100 (MQ=255)
ttttGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑a‑aaaaat > 1:1027275/1‑98 (MQ=255)
tttGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑a‑aaaaatg < 2:1129036/100‑4 (MQ=255)
ttGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑a‑aaaaatga < 1:1735060/100‑5 (MQ=255)
ttGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑a‑aaaaatga < 1:1543967/100‑5 (MQ=255)
gATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACg > 2:1478385/1‑100 (MQ=255)
tGCAGATCGCTTTTTTTTTTTTTTTATTTTTGTTTAATTCAATCAACGATATGCAGTTTTCATCAACAATATAAAGATGGGAGGT‑A‑AAAATGAAAAGGt > 1:373878/1‑99 (MQ=255)
aGATCGCTTTTTCTTTTTAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTggg > 1:1469581/1‑100 (MQ=255)
aGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGa > 2:1256180/1‑100 (MQ=255)
gATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATAAAAAGTAA‑AAAATGAAACGGTGGGa < 1:1196841/100‑1 (MQ=255)
aTCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGa < 1:1050206/99‑1 (MQ=255)
tCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGt < 1:586890/100‑1 (MQ=255)
gCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAAGGGTGGGaa > 2:1163873/1‑97 (MQ=255)
cTTTTTCCCTTCAGGCATTTTTTTTTTTTTTTTTCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGTTCGGa > 1:974848/1‑95 (MQ=255)
cTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTgg < 2:137945/100‑1 (MQ=255)
cTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTgg < 1:942553/100‑1 (MQ=255)
tttttCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGc > 2:1473545/1‑100 (MQ=255)
ttttCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGTGGCtt < 1:809374/100‑1 (MQ=255)
ttttCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGTGGCtt > 2:1057071/1‑100 (MQ=255)
ttCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCttt < 1:863147/100‑1 (MQ=255)
ttCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCttt < 2:1027276/100‑1 (MQ=255)
cTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGTGGCTTTACTgg < 1:1057070/100‑1 (MQ=255)
ttCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTgg < 1:748266/100‑1 (MQ=255)
tCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGt > 2:214272/1‑100 (MQ=255)
tCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGt < 1:1669263/100‑1 (MQ=255)
cAGGCATTTTTGTTTAATTCAATCAACGACAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑ATAAAATGAAACGGTGGGAAGTGGCTTTACTGGTg < 1:1167548/100‑1 (MQ=255)
cAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTg < 1:1819215/100‑1 (MQ=255)
cAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTg < 2:27667/100‑1 (MQ=255)
cAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTg > 2:1409931/1‑100 (MQ=255)
aGGCATTTTTTTTTTTTTTTTTCAACGAAAGGCAGTTCCCAACAACAAATTAAAGATGGGAGGTAA‑AAAATGAAACTGTGGGAAGTGGCTTTACTGGt > 1:739373/1‑98 (MQ=255)
ggCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGa > 2:620529/1‑99 (MQ=255)
ggCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGAt > 2:1598539/1‑100 (MQ=255)
cATTTTTGTTTAAGTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATgg < 1:414164/100‑1 (MQ=255)
tttttGTTTAATTCAATCAACGAAAGGCAGTTCCCAGCAACAAAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTaa < 2:1364906/100‑1 (MQ=255)
ttttGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTaa < 1:19617/100‑1 (MQ=255)
gTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGtt > 2:315367/1‑100 (MQ=255)
tttAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTg < 1:1555085/100‑1 (MQ=255)
ttAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTgg < 1:703645/100‑1 (MQ=255)
aaTTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGtt > 2:1550109/1‑100 (MQ=255)
aTTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGttt > 2:409659/1‑100 (MQ=255)
aTTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGttt > 2:1822217/1‑100 (MQ=255)
aTTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGttt > 2:70774/1‑100 (MQ=255)
caatcaaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCt > 2:1664173/1‑100 (MQ=255)
caatcaaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTg > 2:1207310/1‑100 (MQ=255)
aatcaaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTg > 2:494453/1‑100 (MQ=255)
tcaaCGAAAGGCAGTACCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTa < 2:1914054/100‑1 (MQ=255)
caaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTAt > 2:1017256/1‑100 (MQ=255)
aCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTg > 1:1661039/1‑100 (MQ=255)
aCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTg < 2:434465/100‑1 (MQ=255)
cGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGa < 2:1460538/100‑1 (MQ=255)
aaaGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAAc < 1:1478377/100‑1 (MQ=255)
aaGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACtg > 1:190262/1‑100 (MQ=255)
ggCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACtgt > 1:234773/1‑100 (MQ=255)
gCAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACtgtg < 1:189513/100‑1 (MQ=255)
cAGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGa < 1:250700/100‑1 (MQ=255)
aGTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGaa > 2:158773/1‑100 (MQ=255)
gTTCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAag < 1:823230/100‑1 (MQ=255)
ttCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAagg < 1:1215070/100‑1 (MQ=255)
tCCCAACAACAAAATAAAGATGGGAGGTAA‑AAAACGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAagga < 1:1030220/100‑1 (MQ=255)
cccAACAACAAAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAagga < 2:793626/99‑1 (MQ=255)
cccAACAACAAAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAaggagg > 2:1432939/1‑100 (MQ=255)
aacaacaaAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGAc > 1:1167019/1‑100 (MQ=255)
acaacaaAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGc > 1:869587/1‑100 (MQ=255)
caacaaAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGc > 1:283068/1‑100 (MQ=255)
caaAATAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGTTGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCAt > 2:787416/1‑100 (MQ=255)
aaaTAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGaa < 2:883148/100‑1 (MQ=255)
aaTAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGaa > 2:1795418/1‑100 (MQ=255)
tAAAGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAAc < 1:259488/100‑1 (MQ=255)
aaGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACtt < 1:44074/100‑1 (MQ=255)
aGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACttt < 2:449037/100‑1 (MQ=255)
aGATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACttt < 1:214271/100‑1 (MQ=255)
gATGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACtttt < 1:1441021/100‑1 (MQ=255)
aTGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTa < 1:1724253/100‑1 (MQ=255)
aTGGGAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTa > 2:1663160/1‑100 (MQ=255)
gggAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTAAt < 2:974849/100‑1 (MQ=255)
gAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGATCTGTGAAGGAGGACGCCATGAAACTTTTAATCg < 1:1167365/100‑1 (MQ=255)
gAGGTAA‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTAATCg < 2:1600562/100‑1 (MQ=255)
|
GGTGAATTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑A‑AAAATGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTAATCG > NC_000913/2563415‑2563607
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
