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 |
|
A12 F133 I1 R1
|
102 |
83.9 |
4092546 |
96.1% |
3932936 |
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 | 95.6%
| 234.1
/ 3.7
| 68 | intergenic (+396/‑79) | yffP/yffQ | CPZ‑55 prophage; uncharacterized protein/CPZ‑55 prophage; uncharacterized protein |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base A (37/28); total (38/30) |
| Fisher's exact test for biased strand distribution p-value = 5.79e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
AGGTGAATTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑AAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTAATCG > NC_000913/2563414‑2563607
|
aGGTGAATTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGt < 1:444630/100‑1 (MQ=255)
gTGAATTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑aa > 2:1046749/1‑100 (MQ=255)
gTGAATTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑aa > 2:580289/1‑100 (MQ=255)
tGAATTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑aaa < 1:1031909/100‑1 (MQ=255)
tGAATTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑aaa > 2:1394505/1‑100 (MQ=255)
aTTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑aaaaaa < 2:1509288/100‑2 (MQ=255)
tttGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑aaaaaatg < 1:1263650/100‑4 (MQ=255)
tttGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑aaaaaatg < 1:580291/100‑4 (MQ=255)
tttGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑aaaaaatg < 1:1441234/100‑4 (MQ=255)
gtgATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGaaa > 2:1925898/1‑100 (MQ=255)
tGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGt > 1:446310/1‑100 (MQ=255)
tGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGt > 1:1774258/1‑100 (MQ=255)
gCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTg < 1:992420/100‑1 (MQ=255)
aGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTggg < 2:1774244/100‑1 (MQ=255)
gATCGCTTTTTCCTTTTAGTCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTTCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGa > 2:818172/1‑100 (MQ=255)
gATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGa > 2:547369/1‑100 (MQ=255)
gATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGa > 1:708800/1‑100 (MQ=255)
gATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGa > 2:269873/1‑100 (MQ=255)
gATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGa > 1:1266412/1‑100 (MQ=255)
aTCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGaa < 1:890780/100‑1 (MQ=255)
aTCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGaa > 1:867786/1‑100 (MQ=255)
aTCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGaa > 1:867527/1‑100 (MQ=255)
gCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTg > 1:1738019/1‑100 (MQ=255)
cTTTTTCCCTTCAGGCATTTTTTTTTTTTTTTTTCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGATAAAAAA‑TGAAACGGTGGGAAGt > 2:1300693/1‑98 (MQ=255)
tttttCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑AAAAA‑TGAAACGGTGGGAAGTGGc < 1:1768745/99‑1 (MQ=255)
ttCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCttt < 2:55631/100‑1 (MQ=255)
ttCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCttt > 2:1082062/1‑100 (MQ=255)
ccTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACt < 1:848527/100‑1 (MQ=255)
cTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTg > 2:1560154/1‑100 (MQ=255)
ttCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGATAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTgg < 1:1300700/100‑1 (MQ=255)
cAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTg < 2:421228/100‑1 (MQ=255)
ggCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGAt > 1:1940815/1‑100 (MQ=255)
ggCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑AAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATg < 1:315265/100‑1 (MQ=255)
cATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATgg < 2:910353/100‑1 (MQ=255)
aTTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGt > 2:2005962/1‑100 (MQ=255)
aTTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGt > 2:2027757/1‑100 (MQ=255)
aTTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑AAAAACTGAAACGGTGGGAAGTGGCTTTACTGGTGATGGt > 2:728084/1‑100 (MQ=255)
tttttGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTa > 1:1876064/1‑100 (MQ=255)
ttttGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTaa > 2:897920/1‑100 (MQ=255)
ttttGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTaa < 1:1649405/100‑1 (MQ=255)
tttAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTg > 1:1724178/1‑100 (MQ=255)
ttAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTgg < 1:2042573/100‑1 (MQ=255)
ttAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTgg < 2:1648770/100‑1 (MQ=255)
tAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGt > 2:434556/1‑100 (MQ=255)
tAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGt > 1:661894/1‑100 (MQ=255)
aTTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGttt > 2:728133/1‑100 (MQ=255)
aTTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGttt > 2:1982907/1‑100 (MQ=255)
tcaatcaaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGc < 1:434557/100‑1 (MQ=255)
tcaatcaaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGc < 2:1538095/100‑1 (MQ=255)
aatcaaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTg < 1:1330665/100‑1 (MQ=255)
aatcaaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTg < 2:1947302/100‑1 (MQ=255)
atcaaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGt > 1:1716166/1‑100 (MQ=255)
caaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTAt < 1:1042929/100‑1 (MQ=255)
caaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTAt > 2:212560/1‑100 (MQ=255)
caaCGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTAt < 1:1394514/100‑1 (MQ=255)
aaaGGCAGTTAACAACAATAAAAGAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAAc < 2:13343/100‑1 (MQ=255)
ggCAGTTCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACtgt > 1:1173548/1‑100 (MQ=255)
cttccgatctcaaAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAagg < 2:14558/90‑1 (MQ=255)
tCCCAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAagga < 1:693396/100‑1 (MQ=255)
cccAACAACAAAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAaggag > 2:848027/1‑100 (MQ=255)
acaaAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCa > 2:438024/1‑100 (MQ=255)
acaaAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCa > 1:1820726/1‑100 (MQ=255)
acaaAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCa > 1:1281726/1‑100 (MQ=255)
caaAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAaggagatcggaag > 1:14558/1‑92 (MQ=255)
caaAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCAt < 2:986036/100‑1 (MQ=255)
caaAATAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCAt < 1:547370/100‑1 (MQ=255)
aaTAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGaa < 1:736098/100‑1 (MQ=255)
tAAAGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAAc < 2:1851098/100‑1 (MQ=255)
aaaGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACt > 1:1807999/1‑100 (MQ=255)
aaGATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACtt > 1:1456260/1‑100 (MQ=255)
gATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACtttt < 1:725445/100‑1 (MQ=255)
gATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACtttt < 1:269874/100‑1 (MQ=255)
gATGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACtttt > 1:1523728/1‑100 (MQ=255)
tGGGAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTaa > 1:1461781/1‑100 (MQ=255)
ggAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTAAt > 1:1836944/1‑99 (MQ=255)
gAGGTAAAAAA‑TGAATCGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTAATCg < 1:2009191/100‑1 (MQ=255)
gAGGTAAAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTaa < 2:872019/97‑1 (MQ=255)
|
AGGTGAATTTTGTGATGCAGATCGCTTTTTCCCTTCAGGCATTTTTGTTTAATTCAATCAACGAAAGGCAGTTCCCAACAACAAAATAAAGATGGGAGGT‑AAAAA‑TGAAACGGTGGGAAGTGGCTTTACTGGTGATGGTAATGTTGGTTTGCTGTATTGAACTGTGAAGGAGGACGCCATGAAACTTTTAATCG > NC_000913/2563414‑2563607
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
