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 |
|
A2 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,651,936 |
C→T |
15.1% |
A57V (GCG→GTG) |
glgC → |
glucose‑1‑phosphate adenylyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,651,936 | 0 | C | T | 15.1%
| 140.7
/ 14.3
| 53 | A57V (GCG→GTG) | glgC | glucose‑1‑phosphate adenylyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (30/15); new base T (3/5); total (33/20) |
| Fisher's exact test for biased strand distribution p-value = 1.37e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAGGATTTAACCAATAAGCGAGCAAAACCGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCACCCAGTACCAGTCCCACACTC > minE/2651866‑2652004
|
aaGGATTTAACCAATAAGCGAGCAAAACCGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTgc < 1:22006/71‑1 (MQ=255)
aGGATTTAACCAATAAGCGAGCAAAACCGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTgcg > 1:971541/1‑71 (MQ=255)
tAACCAATAAGCGAGCAAAACCAGCCGTACACTTTGGCGGTAAGTTCCGCATTATCGACTTTGTGCTGTc > 1:1271472/1‑70 (MQ=255)
aaCCAATAAGCGAGCAAAACCGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCt > 1:87949/1‑70 (MQ=255)
cAATAAGCGAGCAAAACCGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTgcg < 1:442735/61‑1 (MQ=255)
cAATAAGCGAGCAAAACCGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTgcg < 1:965176/61‑1 (MQ=255)
cAATAAGCGAGCAAAACCGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACt > 1:241223/1‑71 (MQ=255)
cAATAAGCGAGCAAAACCGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACt > 1:618241/1‑71 (MQ=255)
aGCGAGCAAAACCGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCAt > 1:1873987/1‑70 (MQ=255)
ccGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTaa > 1:99543/1‑53 (MQ=255)
cGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATc < 1:462849/71‑1 (MQ=255)
gTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCTCTGTCTAACTGCATCAACTCCGGGATCcgtcg < 1:1496148/71‑1 (MQ=255)
gTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATc < 1:100056/54‑1 (MQ=255)
gTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATc < 1:1698225/54‑1 (MQ=255)
gTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCcgtcg < 1:969690/71‑1 (MQ=255)
tACACTTCGGCGGTAAGTTCCGCATTATCGACTTTgc < 1:1496901/37‑1 (MQ=255)
acacTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCaa > 1:642572/1‑54 (MQ=255)
cacTTCGGCGGTAAGTTCCGCATTATCGACTTTGTGCTGTCTAAc > 1:1917790/1‑45 (MQ=255)
cacTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACt > 1:342725/1‑46 (MQ=255)
cacTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACt > 1:1271905/1‑46 (MQ=255)
cacTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTa < 1:1967721/70‑1 (MQ=255)
cacTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTa < 1:1353666/70‑1 (MQ=255)
cacTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTAt < 1:827145/71‑1 (MQ=255)
cacTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTAt < 1:1725065/71‑1 (MQ=255)
cacTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTAt < 1:1967747/71‑1 (MQ=255)
ggcggTAAGTTCCGCATTATCGACTTTGTGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGt > 1:555663/1‑71 (MQ=255)
gcggTAAGTTCCGCATTATCGACTTTGTGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTg < 1:159919/71‑1 (MQ=255)
cggTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATg > 1:565539/1‑64 (MQ=255)
cggTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATg > 1:1765545/1‑64 (MQ=255)
gTAAGTTCCGCATTATCGACTTTGTGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTAt < 1:817757/61‑1 (MQ=255)
tAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCa > 1:1291389/1‑71 (MQ=255)
aaGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGa > 1:347578/1‑67 (MQ=255)
aaGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCAc > 1:1865985/1‑71 (MQ=255)
aaGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCAc > 1:123722/1‑71 (MQ=255)
aGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCAcc < 1:618668/71‑1 (MQ=255)
gTTCCGCATTATCGACTTTGTGCTGTCTAACTGCATCAACTCCGGGATCcgtcgt < 1:1684846/55‑1 (MQ=255)
gTTCCGCATTATCGACTTTGTGCTGTCTAACTGCATCAACTCCGGGATCcgtcgt < 1:445937/55‑1 (MQ=255)
gTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCcgtc < 1:2170352/53‑1 (MQ=255)
cATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGt < 1:1064715/57‑1 (MQ=255)
aTTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCcgtcat > 1:666027/1‑46 (MQ=255)
aTTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCcgtcat > 1:663513/1‑46 (MQ=255)
ttATCGACTTTGTGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCACCCAGt < 1:1567905/66‑1 (MQ=255)
tATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTa > 1:1557223/1‑47 (MQ=255)
aTCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCACCCAGTACCAGTc > 1:1725831/1‑71 (MQ=255)
aTCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCACCCAGTACCAGTc > 1:664178/1‑71 (MQ=255)
aTCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCAACCAGTACCAGTc > 1:1688373/1‑71 (MQ=255)
cGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCcgtc > 1:1101894/1‑41 (MQ=255)
cGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCcgtc > 1:1497430/1‑41 (MQ=255)
cGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCcgtc > 1:1921538/1‑41 (MQ=255)
cGACTTTGCGCTGTCTAACTGCATCAACTCAGGGATCcgtc > 1:1844160/1‑41 (MQ=255)
aCTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCACCCAGTACCAGTc > 1:1891387/1‑67 (MQ=255)
aCTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCACCCAGTACCAGTc > 1:156671/1‑67 (MQ=255)
aCTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCACCCAGTACCAGTc > 1:1893915/1‑67 (MQ=255)
tttGCGCTGTCTAACTGCATCAACTCCGGGATCcgtcgt < 1:1862464/39‑1 (MQ=255)
tGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCa > 1:779260/1‑50 (MQ=255)
tGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCa > 1:1640009/1‑50 (MQ=255)
tGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCACCCAGTACCAGTCCCacac < 1:389411/69‑1 (MQ=255)
tGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCACCCAGTACCAGTCCCACActc > 1:855974/1‑71 (MQ=255)
|
AAGGATTTAACCAATAAGCGAGCAAAACCGGCCGTACACTTCGGCGGTAAGTTCCGCATTATCGACTTTGCGCTGTCTAACTGCATCAACTCCGGGATCCGTCGTATGGGCGTGATCACCCAGTACCAGTCCCACACTC > minE/2651866‑2652004
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
