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 |
|
A9 F1 I1 R1
|
16 |
55.7 |
3673927 |
94.4% |
3468187 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,498,010 |
G→A |
S9L (TCG→TTG) |
glgP ← |
glycogen phosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,498,010 | 0 | G | A | 98.0%
| 179.1
/ NA
| 51 | S9L (TCG→TTG) | glgP | glycogen phosphorylase |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (24/26); total (24/27) |
| 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 |
GGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACGG > REL606/3497938‑3498081
|
gggTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATg > 1:857970/1‑76 (MQ=255)
gggTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATg < 2:516109/76‑1 (MQ=255)
gTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGaa > 1:863971/1‑76 (MQ=255)
cTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAatat < 2:407221/76‑1 (MQ=255)
cTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAatat < 1:1268521/76‑1 (MQ=255)
cTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAatat < 1:474423/76‑1 (MQ=255)
tCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTa < 1:929466/76‑1 (MQ=255)
tCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTa < 1:1432884/76‑1 (MQ=255)
tCCAATCGTAAACATCAGCATGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTa > 2:519153/1‑76 (MQ=255)
cAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaaa < 1:1346844/76‑1 (MQ=255)
aaTCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAAc > 2:564863/1‑76 (MQ=255)
tCGTAAACATCAGCTTGTAAGCGATAGAGAGCTTAAGGGCTTCGACGCTAANCGTGAGCGATGAATATGTAAGCgg < 1:160447/76‑1 (MQ=255)
tAAACATCAGCTTGTAAGCGTTAGAGTGCTTAAGGGCTTCTACGCAAAGCGTGGGCAATCAATATGTATACCGAGc > 1:33177/1‑76 (MQ=255)
tAAACATCAGCTTGTAAGCGATAGAGTNCTTAAGGGCTTATACGCTAAGCGTGGGCAATGAATATGTAAACGGAGc > 1:1612672/1‑76 (MQ=255)
tAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGc > 2:1031995/1‑76 (MQ=255)
aaaCATCAGCTTGTAAGCGAGAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGACAATGAATATGTAAACGGAGCa > 2:148831/1‑76 (MQ=255)
aTCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCa > 1:835428/1‑76 (MQ=255)
aTCAGCTTGTAAGCCATCGCGTTCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGCATATGTAAACGGAGCATTCa < 1:84818/76‑1 (MQ=255)
cAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGANCATTCata < 1:1756168/76‑1 (MQ=255)
cAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCata < 1:1319927/76‑1 (MQ=255)
cTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAATCGTGGGCAATGAATATGTAAACGGAGCATTCATATAg < 2:1043368/76‑1 (MQ=255)
ttGTAAGCGATANAGNGCTTAAGGGCTTCTACGCNAAGCGTCGGCAATGAATATGTAAACGGAGCATTCATATAgg < 1:1496084/76‑1 (MQ=255)
ttGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGCGCAATGAATATGTAAACGGAGCATTCATATAgg < 1:1678194/76‑1 (MQ=255)
tGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGc > 2:1201762/1‑76 (MQ=255)
gTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCg < 2:1551354/76‑1 (MQ=255)
gCGATAGAGTTCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATACATATAGGCGTTTc > 1:146675/1‑76 (MQ=255)
gATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCt < 1:1322618/76‑1 (MQ=255)
aTAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATCGGCGTTTCCTg < 1:60456/76‑1 (MQ=255)
tAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGa > 2:366190/1‑76 (MQ=255)
agagagCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGaa > 1:138953/1‑76 (MQ=255)
agagTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGaa > 2:1321574/1‑76 (MQ=255)
tGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACt < 1:1480405/76‑1 (MQ=255)
aaGGGCTTCGACGCGAAGCGTACGCAATCAATATGTAAACAGAGCATTCATATAGGCGTTTCCTGAAAACTATTTc < 2:114480/76‑1 (MQ=255)
aGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCa > 1:1241006/1‑76 (MQ=255)
aGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCa > 2:683888/1‑76 (MQ=255)
gggCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCaa < 2:719126/76‑1 (MQ=255)
gggCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCaa > 2:1289318/1‑76 (MQ=255)
ggCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAg < 1:1031996/76‑1 (MQ=255)
ttCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGa < 2:1612671/76‑1 (MQ=255)
tCTACGCTAAGCGTGGGCAATGTATATGTAAACGGAGCATTCATATAGGCGTTTCGTGAAAACTATTTCAAGCGAt < 2:146675/76‑1 (MQ=255)
tACGCTAAGCGTGGNCAATGAATATGTAAACGGAGCATTCATTTAGGCGTTTCCTGAAAACTATTTCAAGCGACAg < 1:1570029/76‑1 (MQ=255)
tACGCTAAGCGTGGNCAATGAATATGTAAACGGAGCATTCATTTAGGCGTTTCCTGAAAAATAGTTCAAGCGATAg < 1:1570053/76‑1 (MQ=255)
tACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAg > 1:1099063/1‑76 (MQ=255)
aCGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGt > 2:628717/1‑76 (MQ=255)
gCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaa > 1:1246751/1‑76 (MQ=255)
cTAAGCGTGGGCAATGAATATGTCAACNGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaaa > 2:5058/1‑76 (MQ=255)
tAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAg > 2:1083223/1‑76 (MQ=255)
aaGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGc < 1:691314/76‑1 (MQ=255)
aaGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGc > 2:1383665/1‑76 (MQ=255)
aGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGATAACTATTTCAAGCGATAGTAAAGCt > 1:285304/1‑76 (MQ=255)
gCGTGGGCAATGAATATGTAAACGGAGTATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTc < 1:795727/76‑1 (MQ=255)
tGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACg > 2:225512/1‑76 (MQ=255)
gggCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACgg < 1:186278/76‑1 (MQ=255)
|
GGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACGG > REL606/3497938‑3498081
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
