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 |
|
A1 F999 I1 R1
|
225 |
156.4 |
11709729 |
83.8% |
9812752 |
75.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,971,075 |
2 bp→GC |
coding (942‑943/1068 nt) |
rffG → |
dTDP‑glucose 4,6‑dehydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,971,075 | 0 | C | G | 99.2%
| 311.2
/ NA
| 118 | C314W (TGC→TGG) | rffG | dTDP‑glucose 4,6‑dehydratase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base G (61/56); minor base T (0/1); total (61/57) |
| Fisher's exact test for biased strand distribution p-value = 4.83e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
| * | NC_000913 | 3,971,076 | 0 | G | C | 99.2%
| 317.3
/ NA
| 118 | V315L (GTG→CTG) | rffG | dTDP‑glucose 4,6‑dehydratase |
| Reads supporting (aligned to +/- strand): ref base G (0/1); major base C (60/56); minor base T (1/0); total (61/57) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 119 total aligned reads displayed.
CGCTGACCGTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGCGTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGAAAGCTGG > NC_000913/3971006‑3971144
||
cGCTGACCGTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGCGAACTTGGCTGGCTGccc > 2:2663038/1‑75 (MQ=255)
gCTGACCGTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGc > 1:1304960/1‑76 (MQ=255)
tGACCGTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAg > 1:5201558/1‑76 (MQ=255)
tGACCGTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAg < 1:1950804/76‑1 (MQ=255)
gACCGTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAgg < 1:1238415/76‑1 (MQ=255)
gACCGTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAgg > 1:609117/1‑76 (MQ=255)
gACCGTCCGGGGCATGATCTGCGTTACGCCATTGATGCTTCGAAAAGTGCCCGTGAACTTGGCCGGCTGCCGCAgg > 1:542572/1‑76 (MQ=255)
cGTCCGTGGCATGATCTGCGTTCTGCCATTGACGCTTCGACAATTGCCCGTGAACTTGGCTTGCTGCCGCAGGaaa < 2:1085654/76‑1 (MQ=255)
cGTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGaaa < 2:4077068/76‑1 (MQ=255)
cGTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGaaa > 1:701346/1‑76 (MQ=255)
gTCTGGGGCATGATCTGCGTTATGCCATAGCAGGTACTAACATTCCCCGCGCACTTGGCTGGCTGCCTCAGGAAAc < 1:60857/76‑1 (MQ=255)
gTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAAc > 1:4875829/1‑76 (MQ=255)
gTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAAc > 1:656963/1‑76 (MQ=255)
tCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAAcc < 1:5576932/76‑1 (MQ=255)
tCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAAcc > 1:5487928/1‑76 (MQ=255)
ccGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCt > 1:3703623/1‑76 (MQ=255)
ccGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCt > 1:232596/1‑76 (MQ=255)
cGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCtt < 2:5487927/76‑1 (MQ=255)
cGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCtt < 2:4580984/76‑1 (MQ=255)
cGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCtt > 2:2227520/1‑76 (MQ=255)
aggggCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTACACATGGCAGGCTGCCGCCGGAAAccat > 2:5245918/2‑74 (MQ=255)
ggggCATGATCTGCGTTATGCCATTGATGCTTCGCAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCttt > 1:5298004/1‑76 (MQ=255)
ggggCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCttt < 1:2574565/76‑1 (MQ=255)
gggCGTGATCTGCGTTAGGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTg < 2:1482827/76‑1 (MQ=255)
gggCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCGTTg > 1:1383054/1‑76 (MQ=255)
ggCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTACCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGa > 1:3619158/1‑76 (MQ=255)
tcATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGaa > 2:4722323/2‑76 (MQ=255)
gCATGATCTGGGTTATGCCATCGCAGCTCTGACACTTGCCCTTCAACTCTGCTGGCTGCCGCAGGAAACCtttaac < 1:1280819/76‑4 (MQ=255)
gCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGaa > 1:3256026/1‑76 (MQ=255)
gCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGaa < 2:1770513/76‑1 (MQ=255)
gCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGaa < 1:5539107/76‑1 (MQ=255)
cATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGaaa > 1:5151205/1‑76 (MQ=255)
aTGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAg < 2:2620917/76‑1 (MQ=255)
aTGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAg > 2:4338614/1‑76 (MQ=255)
tGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGt > 1:4099368/1‑76 (MQ=255)
tGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGt < 1:2458398/76‑1 (MQ=255)
aTCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTgg < 1:2491363/76‑1 (MQ=255)
tCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGa > 2:2947775/1‑76 (MQ=255)
tCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGa > 1:5021223/1‑76 (MQ=255)
tCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGa < 1:2293470/76‑1 (MQ=255)
tCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGa > 2:475094/1‑76 (MQ=255)
cTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGaa < 2:3015651/76‑1 (MQ=255)
cTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGaa > 1:2717671/1‑76 (MQ=255)
cTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGaa < 2:5324981/76‑1 (MQ=255)
tGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTTAAAGTGGAAt > 1:4680630/1‑76 (MQ=255)
tGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGCAAGTGGAAt > 2:3134840/1‑76 (MQ=255)
tGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAAt < 1:2568741/76‑1 (MQ=255)
cGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGc < 1:5299793/76‑1 (MQ=255)
gTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCg > 1:194178/1‑76 (MQ=255)
ttATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGt < 1:1917293/76‑1 (MQ=255)
ttATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGt < 1:2409426/76‑1 (MQ=255)
tATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTa < 2:4834238/76‑1 (MQ=255)
tATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTa < 1:2078597/76‑1 (MQ=255)
aTGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTaa < 1:4033324/76‑1 (MQ=255)
cATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACg < 2:2264136/76‑1 (MQ=255)
cATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACg < 1:2545759/76‑1 (MQ=255)
aTTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACgg > 1:135578/1‑76 (MQ=255)
aTTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACgg > 1:3095951/1‑76 (MQ=255)
tggATGCTGCGAAAATGGCCCGTGAACTTGGGTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGt < 2:4698700/74‑1 (MQ=255)
gATGCTTCGAAAATTGCCCGTGCACTTGGCTGGCTGCCGCAGGAAACCTCTGAAAGTGGAATGCGTACACCGGATc > 2:355508/1‑76 (MQ=255)
gATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGACACCTTTGAAAGCGGACTGCGTAAAACgggcc > 2:344469/1‑73 (MQ=255)
gATGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTc > 2:283369/1‑76 (MQ=255)
aTGCTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCa < 2:4247690/76‑1 (MQ=255)
cTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTg < 2:4543431/76‑1 (MQ=255)
cTTCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTg < 1:5493904/76‑1 (MQ=255)
ttCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCCGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTgg > 1:4907971/1‑76 (MQ=255)
ttCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTgg > 1:1706271/1‑76 (MQ=255)
ttCGAAAATTGCCCGTGAACTTGGCTGGCTGACGCAGGAAACCTTTGAAAGTGGNATGCGTAAAACGGTTCAGTgg < 1:347662/76‑1 (MQ=255)
tCGAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGt < 1:76477/76‑1 (MQ=255)
gAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAgg > 2:352101/1‑35 (MQ=25)
gAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAATCCTTTGAAAGTGGAATTCGTCAAACGGTTCAGTGGTAt < 2:2281978/76‑1 (MQ=255)
gAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTAt > 2:4830268/1‑76 (MQ=255)
gAAAATTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACATTTGGAAGTGGGATGCGTAAAACGGCTCAGTGGTAt > 1:4953616/1‑76 (MQ=255)
aaaTTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCt < 2:417825/76‑1 (MQ=255)
aaaTTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCt < 2:135578/76‑1 (MQ=255)
aagtGCCCGTGAGCTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTg < 2:347339/73‑1 (MQ=255)
aaTTGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTg > 1:17966/1‑76 (MQ=255)
tGCGCGTGTGCTTGGTTGTGTGCGGGAGGAACTGTATGACAGTGTAGTGGGTAACACGGTTCAGTGGTGTCTGGCt < 2:1470580/76‑1 (MQ=255)
tGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCt < 2:4040339/76‑1 (MQ=255)
tGCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCt < 2:5056504/76‑1 (MQ=255)
gCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTa > 2:727757/1‑76 (MQ=255)
gCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTa < 2:1365943/76‑1 (MQ=255)
gCCCGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTa < 2:1304960/76‑1 (MQ=255)
cccGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTaa > 2:107726/1‑76 (MQ=255)
cccGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTaa > 1:3932500/1‑76 (MQ=255)
cccGTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTGCAGTGGTAGCTGGCTaa > 1:4291045/1‑76 (MQ=255)
gTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGa > 1:3368769/1‑76 (MQ=255)
gTGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGa > 1:4414695/1‑76 (MQ=255)
tGAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGaa < 2:3753375/76‑1 (MQ=255)
gAACTTGGCTGGCTGCCGCAGGGAACCTTTGATAGTGGAATGCGTAAAACGTTTCCAGGGTAGATGGCGAATGaaa > 1:1235855/1‑76 (MQ=255)
gAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGaaa < 1:4615780/76‑1 (MQ=255)
gAACTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGGTCAGTGGTATCTGGCTAATGaaa > 1:1198305/1‑76 (MQ=255)
aaCTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGAAAg > 1:5538114/1‑76 (MQ=255)
aaCTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGAAAg < 2:5167468/76‑1 (MQ=255)
aCTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGAAAGc > 1:1868142/1‑76 (MQ=255)
aCTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCCGGCTAATGAAAGc > 2:4432443/1‑76 (MQ=255)
cTTGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGAAAGCt > 2:3522043/1‑76 (MQ=255)
ttGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGAAAGCtg < 1:4393043/76‑1 (MQ=255)
ttGGCTGGCTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGAAAGCtg < 2:3648980/76‑1 (MQ=255)
tggctggcTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGAAAGCtgg < 2:4857166/76‑1 (MQ=255)
||
CGCTGACCGTCCGGGGCATGATCTGCGTTATGCCATTGATGCTTCGAAAATTGCCCGTGAACTTGGCTGCGTGCCGCAGGAAACCTTTGAAAGTGGAATGCGTAAAACGGTTCAGTGGTATCTGGCTAATGAAAGCTGG > NC_000913/3971006‑3971144
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
