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 |
|
A66 F1 I1 R1
|
19 |
57.4 |
3651244 |
97.1% |
3545357 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,498,004 |
G→A |
T11M (ACG→ATG) |
glgP ← |
glycogen phosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,498,004 | 0 | G | A | 96.9%
| 245.9
/ ‑1.1
| 65 | T11M (ACG→ATG) | glgP | glycogen phosphorylase |
| Reads supporting (aligned to +/- strand): ref base G (0/2); new base A (30/33); total (30/35) |
| Fisher's exact test for biased strand distribution p-value = 4.95e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.07e-01 |
GACGACCGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAG > REL606/3497931‑3498074
|
gacgacCGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATg > 2:1389235/1‑76 (MQ=255)
acCGGGTCCTTTCCAATCGTCAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCg < 1:1081511/76‑1 (MQ=255)
acCGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCg < 1:1658621/76‑1 (MQ=255)
ccGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGa > 2:784113/1‑76 (MQ=255)
gggTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATg < 2:458361/76‑1 (MQ=255)
ggTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGa < 1:1015104/76‑1 (MQ=255)
ggTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGa > 1:1264668/1‑76 (MQ=255)
gTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGaa < 2:971491/76‑1 (MQ=255)
tCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAat > 1:325798/1‑76 (MQ=255)
tCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAat < 1:839801/76‑1 (MQ=255)
tCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAat > 1:517603/1‑76 (MQ=255)
ttCCAATCGTAAACATCAGTTTGCAAGCGATAGAGGGATTAAGGGCTTCTGCGCTAAGCATGGGCGATGAATATGt < 2:394647/76‑1 (MQ=255)
ccAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTaa > 1:359871/1‑76 (MQ=255)
cAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTaaa < 2:1085410/76‑1 (MQ=255)
aaTCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAAc < 1:80310/76‑1 (MQ=255)
tCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACgg < 2:382801/76‑1 (MQ=255)
tCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACgg > 2:470098/1‑76 (MQ=255)
gTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAg > 1:458451/1‑76 (MQ=255)
gTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAg > 1:500991/1‑76 (MQ=255)
gTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAg > 1:1215218/1‑76 (MQ=255)
aaaCATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCa < 1:1757539/76‑1 (MQ=255)
aaaCATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCa > 1:208134/1‑76 (MQ=255)
aaaCATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCa > 1:1776531/1‑76 (MQ=255)
aTCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCa > 1:1600118/1‑76 (MQ=255)
aGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCatat < 2:1727456/76‑1 (MQ=255)
aGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCatat < 2:1418262/76‑1 (MQ=255)
cTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAg < 2:1250749/76‑1 (MQ=255)
cTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAg < 1:1103278/76‑1 (MQ=255)
cTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAg > 1:1346124/1‑76 (MQ=255)
ttGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAgg < 1:1046100/76‑1 (MQ=255)
ttGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAgg < 2:1134339/76‑1 (MQ=255)
tGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGc < 2:558343/76‑1 (MQ=255)
tGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGc > 2:687080/1‑76 (MQ=255)
gTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCg < 2:65255/76‑1 (MQ=255)
aGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGttt < 1:1335998/76‑1 (MQ=255)
gCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTc < 2:1707389/76‑1 (MQ=255)
gATAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCt < 1:320419/76‑1 (MQ=255)
aTAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTccag > 1:642538/1‑74 (MQ=255)
aTAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTg > 1:175718/1‑76 (MQ=255)
aTAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTg > 2:1020951/1‑76 (MQ=255)
tAGAGTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGa < 2:202371/76‑1 (MQ=255)
agagTGCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGaa > 1:125425/1‑76 (MQ=255)
gCTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTa < 1:29396/76‑1 (MQ=255)
cTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTAt > 2:833870/1‑76 (MQ=255)
cTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTAt > 1:1596742/1‑76 (MQ=255)
cTTAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTAt > 2:646975/1‑76 (MQ=255)
tAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTAttt < 1:1000469/76‑1 (MQ=255)
tAAGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTAttt > 1:837990/1‑76 (MQ=255)
aGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCa < 1:1627605/76‑1 (MQ=255)
aGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCa < 1:1692039/76‑1 (MQ=255)
aGGGCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCa < 2:359871/76‑1 (MQ=255)
gggCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCaa < 1:862940/76‑1 (MQ=255)
ggCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAg < 2:1513103/76‑1 (MQ=255)
gCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGc < 1:1806258/76‑1 (MQ=255)
gCTTCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGc > 1:1068396/1‑76 (MQ=255)
ttCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGa > 2:1145758/1‑76 (MQ=255)
ttCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGa > 1:802714/1‑76 (MQ=255)
tCTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGAt > 2:1006496/1‑76 (MQ=255)
cTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATa > 1:711036/1‑76 (MQ=255)
cTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATa < 1:863509/76‑1 (MQ=255)
cTACGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATa < 1:889755/76‑1 (MQ=255)
cGCTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTa < 1:602145/76‑1 (MQ=255)
cTAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaaa > 2:854379/1‑76 (MQ=255)
tAAGCTTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGCTTCCTGAAAACTATTTCAAGCGATAGTaaac > 2:356691/1‑75 (MQ=255)
tAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAg > 1:390612/1‑76 (MQ=255)
tAAGCATGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAg < 1:1506783/76‑1 (MQ=255)
|
GACGACCGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAG > REL606/3497931‑3498074
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
