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 |
|
A112 F1 I1 R1
|
17 |
249.1 |
16570612 |
93.0% |
15410669 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,147,762 |
G→A |
intergenic (+57/+22) |
rpoD → / ← ygjF |
RNA polymerase sigma factor/G/U mismatch‑specific DNA glycosylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,147,762 | 0 | G | A | 99.6%
| 856.2
/ NA
| 224 | intergenic (+57/+22) | rpoD/ygjF | RNA polymerase sigma factor/G/U mismatch‑specific DNA glycosylase |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (124/99); total (124/100) |
| Fisher's exact test for biased strand distribution p-value = 4.46e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 248 total aligned reads displayed.
GCTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAAC > REL606/3147689‑3147834
|
cTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCa > 1:7581651/1‑76 (MQ=255)
cTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCa > 1:1595415/1‑76 (MQ=255)
cTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCa > 2:7937989/1‑76 (MQ=255)
cTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCa > 2:1884449/1‑76 (MQ=255)
cTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCa < 2:2382372/76‑1 (MQ=255)
ccTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCt > 1:1345059/1‑76 (MQ=255)
ccTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCt < 1:5609141/76‑1 (MQ=255)
ccTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCt < 1:351655/76‑1 (MQ=255)
cTGGACGATTAATGGGTGGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCtt < 2:7608406/76‑1 (MQ=38)
cTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCtt < 2:598227/76‑1 (MQ=255)
cTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCtt < 2:554836/76‑1 (MQ=255)
ggACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCtttt < 1:5797369/76‑1 (MQ=255)
ggACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCtttt < 2:3295889/76‑1 (MQ=255)
aCGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCg > 2:3616563/1‑76 (MQ=255)
aCGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCg < 1:812799/76‑1 (MQ=255)
gATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGt < 2:4330651/76‑1 (MQ=255)
gATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGt < 1:2566486/76‑1 (MQ=255)
aTTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTg > 2:1987785/1‑76 (MQ=255)
aTTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTg < 2:2195573/76‑1 (MQ=255)
aTTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTg < 1:2216077/76‑1 (MQ=255)
ttAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTgg > 2:6265684/1‑76 (MQ=255)
aaTCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCg > 2:6870347/1‑76 (MQ=255)
aaTCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCg > 2:129823/1‑76 (MQ=255)
aaTCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCg > 2:2234818/1‑76 (MQ=255)
aaTCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAAGCCCTCTGCACAAACACCACCTTTTCGGTGGCg > 2:6757966/1‑76 (MQ=255)
aTCGGTAGGCCGGATGAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGt < 1:5384646/76‑1 (MQ=255)
tCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCATTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGtt < 1:6977498/76‑1 (MQ=255)
tCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGtt < 1:6126972/76‑1 (MQ=255)
cGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGttt > 2:8042164/1‑76 (MQ=255)
ggTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGtttt > 2:4028580/1‑76 (MQ=255)
gTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGttttt < 2:4454702/76‑1 (MQ=255)
tAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGtttttt > 2:507959/1‑76 (MQ=255)
tAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGtttttt > 2:4129279/1‑76 (MQ=255)
tAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGtttttt < 1:7116309/76‑1 (MQ=255)
aGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGTCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTa > 1:3960016/1‑76 (MQ=255)
aGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTa < 2:2746957/76‑1 (MQ=255)
ggCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTAt < 2:2424633/76‑1 (MQ=255)
gCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATc > 2:2754724/1‑76 (MQ=255)
ccGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCg < 2:3550955/76‑1 (MQ=255)
ccGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCg > 1:4133828/1‑76 (MQ=255)
cGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGc > 1:1188641/1‑76 (MQ=255)
cGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGc > 2:1627794/1‑76 (MQ=255)
cGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGc > 1:3183480/1‑76 (MQ=255)
tCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCAc > 1:989422/1‑76 (MQ=255)
cAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACg < 2:4515612/76‑1 (MQ=255)
cAGGCGTTAACCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGAGGCGTTCTTTACCGACCAcc > 2:663992/1‑75 (MQ=255)
aGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGc > 2:82057/1‑76 (MQ=255)
aGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGc > 2:782302/1‑76 (MQ=255)
gCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCAc < 1:2099638/76‑1 (MQ=255)
gCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCAc > 1:6042070/1‑76 (MQ=255)
cGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACt > 2:495875/1‑76 (MQ=255)
cGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACt < 2:2903050/76‑1 (MQ=255)
cGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACt > 1:676350/1‑76 (MQ=255)
gTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTa < 1:4001703/76‑1 (MQ=255)
gTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTa > 2:7016821/1‑76 (MQ=255)
gTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTa > 1:5855929/1‑76 (MQ=255)
ttACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTAc < 2:8621/76‑1 (MQ=255)
ttACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTAc < 2:2898624/76‑1 (MQ=255)
ttACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTAc > 1:7085755/1‑76 (MQ=255)
tACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTAcc > 1:2398066/1‑76 (MQ=255)
tACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTAcc < 2:7253110/76‑1 (MQ=255)
tACGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTAcc > 2:4348115/1‑76 (MQ=255)
tACGCCGCACCCGGCACTAGGCCCCCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTAcc < 1:1090028/76‑1 (MQ=255)
aCGCCGCACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCa < 2:183708/76‑1 (MQ=255)
cgccgcACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAg < 2:1687198/76‑1 (MQ=255)
gcACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGcc > 1:7936678/1‑76 (MQ=255)
cACCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCt < 1:6287924/76‑1 (MQ=255)
ccccGGCACTAGGCCCTCTGCACAAACACCCCCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTg < 1:6298445/75‑1 (MQ=255)
aCCCGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTg < 1:5000092/76‑1 (MQ=255)
cccGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTgg < 2:1535161/76‑1 (MQ=255)
ccGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGt > 2:2141876/1‑76 (MQ=255)
ccGGCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGt > 1:5576188/1‑76 (MQ=255)
ggCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTcc < 1:475723/76‑1 (MQ=255)
gCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCa < 2:3730918/76‑1 (MQ=255)
gCACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCa > 2:1069941/1‑76 (MQ=255)
cACTAGTCCCTCTGCCAAACCGCCTCCCTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAg < 2:4748127/76‑1 (MQ=255)
cACTAGGCCCTCTGCACAAGCACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAg < 1:2007961/76‑1 (MQ=255)
cACTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCTCCTGGTCCAg < 2:4617474/76‑1 (MQ=255)
aCTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGc > 1:8065097/1‑76 (MQ=255)
aCTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGc < 1:5499530/76‑1 (MQ=255)
cTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCt > 1:7187680/1‑76 (MQ=255)
cTAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCt > 2:6431245/1‑76 (MQ=255)
tAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTc < 1:3647024/76‑1 (MQ=255)
tAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTc > 1:87670/1‑76 (MQ=255)
tAGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTc > 1:5177778/1‑76 (MQ=255)
aGGCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTcg > 1:5443090/1‑76 (MQ=255)
gCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTcgcg < 1:6411223/76‑1 (MQ=255)
gCCCTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTcgcg < 2:3050572/76‑1 (MQ=255)
cccTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGa > 2:5146721/1‑76 (MQ=255)
cccTCTGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGa > 2:738344/1‑76 (MQ=255)
tctGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATAc > 2:2508829/1‑76 (MQ=255)
ctGCACAAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACg > 1:4530866/1‑76 (MQ=255)
cacaAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCtt > 2:3174980/1‑76 (MQ=255)
acaAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTc < 1:3940796/76‑1 (MQ=255)
acaAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTc < 2:5455159/76‑1 (MQ=255)
acaAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTc > 1:7433870/1‑76 (MQ=255)
caAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCa < 2:6027163/76‑1 (MQ=255)
caAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCa < 1:2943955/76‑1 (MQ=255)
caAACACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCa > 1:1967811/1‑76 (MQ=255)
aaCACCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAAc < 1:1780425/76‑1 (MQ=255)
|
GCTTCCTGGACGATTAATCGGTAGGCCGGATCAGGCGTTACGCCGCACCCGGCACTAGGCCCTCTGCACAAACGCCACCTTTTCGGTGGCGTTTTTTATCGCCCACGCACTACCAGCGCCTGGTCCAGCTCGCGATACGCTTCAAC > REL606/3147689‑3147834
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
