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 |
|
A6 F1 I1 R1
|
750 |
51.0 |
2595496 |
93.6% |
2429384 |
106.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,475,562 |
(G)6→7 |
coding (126/1815 nt) |
yjgL → |
SopA‑central‑domain‑like hexapeptide repeat protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,475,556 | 1 | . | G | 96.7%
| 209.3
/ ‑0.6
| 61 | coding (120/1815 nt) | yjgL | SopA‑central‑domain‑like hexapeptide repeat protein |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base G (31/28); total (32/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01 |
CTCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CC‑GGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCTCAT > NC_000913/4475422‑4475688
|
cTCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CT‑gggg > 2:910791/1‑139 (MQ=255)
aaGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CC‑ggggg‑gg < 1:540522/139‑2 (MQ=255)
aaGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CC‑ggggg‑gg > 2:734560/1‑138 (MQ=255)
aGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CC‑ggggg‑ggc < 2:406105/139‑3 (MQ=255)
gAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CC‑ggggg‑ggcag < 1:671348/139‑5 (MQ=255)
aGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CC‑ggggg‑ggcagg < 2:127003/139‑6 (MQ=255)
atCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATAttct < 1:833568/139‑1 (MQ=255)
attacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGttt > 2:806691/1‑139 (MQ=255)
attacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGttt > 1:943206/1‑139 (MQ=255)
attacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGttt > 1:918331/1‑139 (MQ=255)
ttacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CC‑GGGGGAGCAGGATAACAGAAg < 2:865105/104‑1 (MQ=255)
ttacattaGCCGACAATTTCAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAg > 1:865105/1‑104 (MQ=255)
tacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAg < 2:421172/100‑1 (MQ=255)
tacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAg > 1:421172/1‑100 (MQ=255)
tacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAgg < 1:245941/104‑1 (MQ=255)
tacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAgg > 2:245941/1‑104 (MQ=255)
tacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGttttt > 2:1077391/1‑139 (MQ=255)
tacattaGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGttttt > 1:859338/1‑139 (MQ=255)
taGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTTGAATGAATGATTTTGCTCGTATTGTCG‑GGGGG‑GTAGGATAACAGAAGGGATATTCTTTCTGCTGGAGCATTTCTAGTGTTTTTGGCaa > 2:362828/1‑139 (MQ=255)
taGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAg < 1:323796/95‑1 (MQ=255)
taGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAg > 2:323796/1‑95 (MQ=255)
taGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCaa > 1:1017632/1‑139 (MQ=255)
taGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCaa > 1:521783/1‑139 (MQ=255)
aGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCaaa < 2:943206/139‑1 (MQ=255)
ccGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGAt > 1:1011564/1‑87 (MQ=255)
ccGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGAt < 2:1011564/87‑1 (MQ=255)
ccGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGa > 2:84528/1‑139 (MQ=255)
aCAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat < 1:1150354/139‑1 (MQ=255)
aCAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat < 1:84528/139‑1 (MQ=255)
aaTTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGCGTGTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat > 1:107149/1‑139 (MQ=255)
tttAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTAcc < 2:1058300/139‑1 (MQ=255)
aaTACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCaaa < 1:806691/139‑1 (MQ=255)
tACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACg < 2:1017632/139‑1 (MQ=255)
cTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAg < 1:609424/55‑1 (MQ=255)
cTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAg > 2:609424/1‑55 (MQ=255)
cTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAg < 2:449241/55‑1 (MQ=255)
cTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAg > 1:449241/1‑55 (MQ=255)
cTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATAttctt > 1:718314/1‑68 (MQ=255)
cTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTc > 1:374758/1‑139 (MQ=255)
cTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGACAACAGAAGGAATAttctt < 2:718314/68‑1 (MQ=255)
ggC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAg < 2:1050915/53‑1 (MQ=255)
ggC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAg > 1:1050915/1‑53 (MQ=255)
ggC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGaa < 1:809580/55‑1 (MQ=255)
ggC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGaa > 2:809580/1‑55 (MQ=255)
ggC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCa > 1:84122/1‑139 (MQ=255)
ggC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCa > 2:439885/1‑139 (MQ=255)
c‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAAc > 2:1037105/1‑139 (MQ=255)
gtTGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGaa > 1:163502/1‑139 (MQ=255)
ttGGAATGAATGATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAg < 1:255794/139‑1 (MQ=255)
aatgaatgATTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCggg < 2:417082/139‑1 (MQ=255)
atgaatgaTTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat > 1:425585/1‑92 (MQ=255)
atgaatgaTTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat < 2:425585/92‑1 (MQ=255)
atgaatgaTTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGt < 2:163502/139‑1 (MQ=255)
aatgaTTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATAttct > 2:372371/1‑51 (MQ=255)
aatgaTTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATAttct < 1:372371/51‑1 (MQ=255)
aatgaTTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCggg > 2:227680/1‑135 (MQ=255)
aatgaTTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCggg < 1:227680/135‑1 (MQ=255)
aatgaTTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGa > 1:1242445/1‑139 (MQ=255)
atgaTTTTGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGaa > 1:1174658/1‑139 (MQ=255)
tttGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATatg < 2:1174658/139‑1 (MQ=255)
tttGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATatg < 2:1168389/139‑1 (MQ=255)
ttGCCCGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATatga < 2:1242445/139‑1 (MQ=255)
cGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCt < 1:439885/139‑1 (MQ=255)
cGTATTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCt < 2:918331/139‑1 (MQ=255)
aTTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat > 2:666146/1‑74 (MQ=255)
aTTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGatat < 1:666146/74‑1 (MQ=255)
aTTG‑CCGGGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCTCat > 1:601479/1‑139 (MQ=255)
|
CTCAAGGAGTTCGTCATGAGCAAAATATCAGATTTAAATTATTCTCAACACATTACATTAGCCGACAATTTTAAACAAAAAAGTGAAGTTTTAAATACCTGGC‑‑GTGTTGGAATGAATGATTTTGCCCGTATTG‑CC‑GGGGG‑GCAGGATAACAGAAGGAATATTCTTTCTCCTGGAGCATTTTTAGAGTTTTTGGCAAAGATATTTACCCTGGGTTATGTGGATTTTAGCAAACGCTCCAACGAAGCGGGTAGAAATATGATGGCTCAT > NC_000913/4475422‑4475688
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ 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
