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 |
|
A67 F1 I1 R1
|
17 |
65.0 |
4212288 |
95.3% |
4014310 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,497,945 |
T→G |
K31Q (AAG→CAG) |
glgP ← |
glycogen phosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,497,945 | 0 | T | G | 98.2%
| 222.2
/ ‑4.0
| 54 | K31Q (AAG→CAG) | glgP | glycogen phosphorylase |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base G (25/28); total (25/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.33e-01 |
CCACGAGACGATCGCGCACAGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAATA > REL606/3497873‑3498017
|
ccACGAGACGATCGCGCACAGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTcc < 1:1348098/76‑1 (MQ=255)
cGAGACGATCGCGCACAGGAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAAt < 1:597919/76‑1 (MQ=255)
cGATCGCGCACAGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTaa > 2:1363088/1‑76 (MQ=255)
gATCGCGCACAGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTaaa > 1:1672798/1‑76 (MQ=255)
aTCGCGCACAGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAAc < 1:840640/76‑1 (MQ=255)
tCGCGCACAGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACa < 1:1301469/76‑1 (MQ=255)
tCGCGCACAGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACa < 2:1782985/76‑1 (MQ=255)
gcgcACAGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATc < 1:1004753/76‑1 (MQ=255)
gcgcACAGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATc < 1:1758808/76‑1 (MQ=255)
cacaGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGc > 2:2020272/1‑76 (MQ=255)
cacaGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGc < 2:1634247/76‑1 (MQ=255)
aGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTg < 2:797274/76‑1 (MQ=255)
cAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTa < 1:1680370/76‑1 (MQ=255)
aaaTAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTTTCCAATCGTAAACATCAGCTTGTaa < 2:775482/76‑1 (MQ=255)
aaaTAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTaa > 1:347865/1‑76 (MQ=255)
tAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAgag < 1:1417918/76‑3 (MQ=255)
tAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCg < 1:2051978/76‑1 (MQ=255)
cGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATa < 2:1341910/76‑1 (MQ=255)
gTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATag < 2:636774/76‑1 (MQ=255)
ttGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATaga > 2:574183/1‑76 (MQ=255)
tGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATaggg > 2:1069835/1‑74 (MQ=255)
cGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTg < 1:200016/76‑1 (MQ=255)
tCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCtt < 1:2028194/76‑1 (MQ=255)
tCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCtt > 1:1346711/1‑76 (MQ=255)
cAGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTa < 2:874448/76‑1 (MQ=255)
aGCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTaa < 1:1422652/76‑1 (MQ=255)
gCCATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAg < 1:2105918/76‑1 (MQ=255)
cATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAggg > 1:566717/1‑76 (MQ=255)
cATTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAggg < 2:581299/76‑1 (MQ=255)
aTTCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGc > 2:382007/1‑76 (MQ=255)
ttCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGGGAAAGAGTGCTTAAGGGCt > 1:1690887/1‑76 (MQ=255)
tCATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCtt > 2:635725/1‑76 (MQ=255)
cATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTc > 1:609317/1‑76 (MQ=255)
cATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTc > 2:153528/1‑76 (MQ=255)
cATGTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTc > 1:1496088/1‑76 (MQ=255)
gTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGCGTGCTTAAGGGCTTCTAc > 2:455507/1‑76 (MQ=255)
gTTTATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTAc > 1:1231853/1‑76 (MQ=255)
tttATTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACg > 1:1971566/1‑76 (MQ=255)
aTTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTa > 1:166024/1‑76 (MQ=255)
aTTGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTa < 2:1731195/76‑1 (MQ=255)
ttGGCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTaa < 2:1109105/76‑1 (MQ=255)
ggCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGc < 2:2091102/76‑1 (MQ=255)
ggCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGc < 2:164439/76‑1 (MQ=255)
gCGACGACCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCg < 2:615671/76‑1 (MQ=255)
gacCGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGc > 2:1611683/1‑76 (MQ=255)
cGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGAt < 2:225228/76‑1 (MQ=255)
cGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGAt > 2:1376411/1‑76 (MQ=255)
cGGGTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGAt < 1:154310/76‑1 (MQ=255)
ggTCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGa > 2:1194652/1‑76 (MQ=255)
tCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAat > 2:1497626/1‑76 (MQ=255)
tCCTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAat > 2:1332536/1‑76 (MQ=255)
ccTTTCACAGCGTAAACATCAGCTTGTAAGCGATAGATTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAata < 2:985100/76‑1 (MQ=255)
ccTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAata > 1:1647764/1‑76 (MQ=255)
ccTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAata > 1:1399151/1‑76 (MQ=255)
ccTGTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAata < 2:985109/76‑1 (MQ=255)
|
CCACGAGACGATCGCGCACAGCAAATAACGTTGCGTTCAGCCATTCATGTTTATTGGCGACGACCGGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAATA > REL606/3497873‑3498017
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
