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 |
|
A75 F1 I1 R1
|
16 |
50.8 |
3316832 |
95.7% |
3174208 |
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 | 98.5%
| 264.4
/ NA
| 67 | S9L (TCG→TTG) | glgP | glycogen phosphorylase |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (32/34); total (32/35) |
| 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 > 1:900044/1‑76 (MQ=255)
cTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAatat < 1:749461/76‑1 (MQ=255)
ttCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGt > 2:230085/1‑76 (MQ=255)
tCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTa < 1:574666/76‑1 (MQ=255)
tCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTa < 1:82418/76‑1 (MQ=255)
tCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTa < 1:1026493/76‑1 (MQ=255)
ccAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaa > 1:427487/1‑76 (MQ=255)
ccAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaa > 1:40994/1‑76 (MQ=255)
ccAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaa > 1:28338/1‑76 (MQ=255)
ccAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaa > 1:1220619/1‑76 (MQ=255)
ccAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaa < 1:1157772/76‑1 (MQ=255)
cAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaaa > 2:186023/1‑76 (MQ=255)
cAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaaa > 2:809337/1‑76 (MQ=255)
cAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaaa > 2:487665/1‑76 (MQ=255)
aTCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACg < 2:252569/76‑1 (MQ=255)
tCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACgg < 2:1115966/76‑1 (MQ=255)
cGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGa > 1:1634482/1‑76 (MQ=255)
cGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGa < 1:1189286/76‑1 (MQ=255)
cGTAAACATCAGCCTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGa > 1:798438/1‑76 (MQ=255)
gTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAg > 1:180197/1‑76 (MQ=255)
aaCATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCAt > 2:974190/1‑76 (MQ=255)
tCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCat > 1:769569/1‑76 (MQ=255)
aGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCatat < 1:1475789/76‑1 (MQ=255)
aGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCatat < 1:1574678/76‑1 (MQ=255)
gCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCAtata > 1:1299875/1‑76 (MQ=255)
ttGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAgn < 1:1213507/76‑2 (MQ=255)
tGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGc > 1:165003/1‑76 (MQ=255)
gTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCg > 2:879629/1‑76 (MQ=255)
tAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGt > 2:465973/1‑76 (MQ=255)
aGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGttt > 1:1555662/1‑76 (MQ=255)
gCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTc > 2:732820/1‑76 (MQ=255)
gATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCt > 1:1223802/1‑76 (MQ=255)
tAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGa < 2:145428/76‑1 (MQ=255)
tAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGa < 2:1296330/76‑1 (MQ=255)
tAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGa < 2:1587229/76‑1 (MQ=255)
tAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGa < 2:297864/76‑1 (MQ=255)
tAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGa < 2:169322/76‑1 (MQ=255)
tAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGa < 2:920827/76‑1 (MQ=255)
tAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTAttt < 2:969042/76‑1 (MQ=255)
aaGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTc > 2:1247854/1‑76 (MQ=255)
aaGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTc > 2:575803/1‑76 (MQ=255)
aaGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTc > 1:699129/1‑76 (MQ=255)
aGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCa < 2:1046319/76‑1 (MQ=255)
aGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCa < 2:1536570/76‑1 (MQ=255)
aGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCa < 2:1436004/76‑1 (MQ=255)
aGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCa < 2:244882/76‑1 (MQ=255)
aGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCa > 2:367243/1‑76 (MQ=255)
ttCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGa < 2:991914/76‑1 (MQ=255)
tCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGAt < 2:1613652/76‑1 (MQ=255)
tACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAg < 1:220538/76‑1 (MQ=255)
tACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAg < 1:890226/76‑1 (MQ=255)
aCGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGt < 1:954041/76‑1 (MQ=255)
cGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTa < 1:889212/76‑1 (MQ=255)
gCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaa < 1:1457379/76‑1 (MQ=255)
gCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaa < 2:900044/76‑1 (MQ=255)
cTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaaa < 2:768009/76‑1 (MQ=255)
cTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaaa > 1:916817/1‑76 (MQ=255)
cTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaaa > 1:635934/1‑76 (MQ=255)
cTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaaa > 1:1637196/1‑76 (MQ=255)
cTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaaa > 1:1325224/1‑76 (MQ=255)
tAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAg > 1:600284/1‑76 (MQ=255)
tAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAg < 1:1103025/76‑1 (MQ=255)
aaGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGc > 1:1367751/1‑76 (MQ=255)
cGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCa > 2:1449486/1‑76 (MQ=255)
gTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCAc < 1:549278/76‑1 (MQ=255)
tGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACg < 2:1476350/76‑1 (MQ=255)
tGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACg < 2:1290340/76‑1 (MQ=255)
gggCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACgg > 2:660596/1‑76 (MQ=255)
|
GGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACGG > REL606/3497938‑3498081
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
