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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,294,089 |
C→A |
43.6% |
intergenic (+116/‑159) |
gldA → / → yijF |
glycerol dehydrogenase, NAD/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,294,089 | 0 | C | A | 43.6%
| 74.1
/ 70.5
| 71 | intergenic (+116/‑159) | gldA/yijF | glycerol dehydrogenase, NAD/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (19/21); new base A (18/13); total (37/34) |
| Fisher's exact test for biased strand distribution p-value = 4.74e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.16e-01 |
TGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAATCTGAAACTCCCACGTTGTTCAGGAATT > minE/2294022‑2294159
|
tGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGa > 1:1324775/1‑71 (MQ=255)
tGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGa > 1:2831294/1‑71 (MQ=255)
gATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGa > 1:4901081/1‑70 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGAt < 1:4455300/70‑1 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATa < 1:973445/71‑1 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGAt > 1:1621580/1‑70 (MQ=255)
tGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATaa < 1:4767790/71‑1 (MQ=255)
cgcTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAg < 1:2057525/70‑1 (MQ=255)
cTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCg < 1:1017138/71‑1 (MQ=255)
cTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCg < 1:581835/71‑1 (MQ=255)
cGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGtt < 1:4114046/70‑1 (MQ=255)
cTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCAc > 1:3613057/1‑71 (MQ=255)
tATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCg < 1:54883/64‑1 (MQ=255)
tATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCg < 1:2644355/64‑1 (MQ=255)
aTCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTcc > 1:1376865/1‑71 (MQ=255)
tCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGAt < 1:2993334/56‑1 (MQ=17)
tCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGtt < 1:1285377/64‑1 (MQ=255)
cAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCg > 1:4720792/1‑70 (MQ=255)
aGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATaa > 1:1977081/1‑56 (MQ=17)
aGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATaa > 1:592788/1‑56 (MQ=17)
aGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCa < 1:3097563/71‑1 (MQ=255)
gCCTACGCCATCTCTGCAATATATTGAATTTGCTTGCTTTTGTAGGCAGGATAAGGCGTTCACGCCGCATc < 1:5565589/71‑1 (MQ=14)
gCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCACGCCGCATc < 1:350415/71‑1 (MQ=14)
cTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATaa > 1:4650485/1‑52 (MQ=14)
cTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCACGCCGCATCCg > 1:3390699/1‑71 (MQ=11)
tACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGtt < 1:2706362/57‑1 (MQ=255)
tACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGtt < 1:5361768/57‑1 (MQ=255)
aCGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGAt < 1:776566/48‑1 (MQ=255)
cGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATaa > 1:827485/1‑49 (MQ=14)
cGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATaa > 1:4195964/1‑49 (MQ=14)
cGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATaa > 1:2887121/1‑49 (MQ=14)
cGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTc > 1:4768019/1‑56 (MQ=14)
cGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCACGCCGCATCCgg < 1:1258126/69‑1 (MQ=11)
cGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCACGCCGCATCCgg < 1:2120277/69‑1 (MQ=11)
cGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCACGCCGCATCCGGCa > 1:3472742/1‑71 (MQ=11)
cGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCACGCCGCATCCGGCa > 1:2113870/1‑71 (MQ=11)
cGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCACGCCGCATCCGGCa > 1:4381388/1‑71 (MQ=11)
cGCAATCTCTGCAATATAATGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCTTCCgg < 1:4109549/69‑1 (MQ=255)
tctcTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGAt < 1:1518826/42‑1 (MQ=255)
tctcTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATa < 1:4591468/43‑1 (MQ=255)
ctctGTAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCg > 1:749650/1‑47 (MQ=255)
ctctGCAATATATTGAATTTGCGTGCTTTTGTAAGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCtgt > 1:2420119/1‑71 (MQ=255)
tctGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCa > 1:4102370/1‑64 (MQ=40)
tctGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATaa > 1:4010011/1‑42 (MQ=255)
ctGCAATATATTGAATTTGCGTGCTTTTTTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGc > 1:5678167/1‑71 (MQ=255)
ctGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGtt < 1:5568961/47‑1 (MQ=38)
ctGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGtt < 1:3646079/47‑1 (MQ=38)
tGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGc > 1:4100520/1‑70 (MQ=255)
cAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCa < 1:2137637/46‑1 (MQ=38)
cAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCa < 1:5045231/46‑1 (MQ=38)
cAATATATTGAATTTGCGTGCTTTTGTAGGCAGGAt < 1:50652/36‑1 (MQ=255)
aaTATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCActct > 1:3623469/1‑63 (MQ=255)
atatatTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGt > 1:1044988/1‑70 (MQ=255)
atatatTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGt < 1:1771631/70‑1 (MQ=255)
atatatTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTa < 1:3342011/71‑1 (MQ=255)
atatatTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTa < 1:2666049/71‑1 (MQ=255)
tatTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCa > 1:4161596/1‑41 (MQ=255)
tatTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCa > 1:1820872/1‑41 (MQ=255)
atTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCa > 1:704235/1‑40 (MQ=40)
ttGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAATCt > 1:540453/1‑70 (MQ=255)
tGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTc > 1:5021569/1‑37 (MQ=255)
gAATTTGCGTGCTTTTGTAGGCCTGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAATCTGa < 1:770221/70‑1 (MQ=255)
gAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAATCTGa < 1:2242911/70‑1 (MQ=255)
aTTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAATCt > 1:3459319/1‑66 (MQ=255)
aTTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAATCt > 1:3457347/1‑66 (MQ=255)
tttGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTc < 1:150415/37‑1 (MQ=37)
ttGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAAt > 1:2507610/1‑62 (MQ=255)
ttGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAAt > 1:815692/1‑62 (MQ=255)
tGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATcc > 1:3887064/1‑42 (MQ=38)
tGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAATCTGAAACTCCCACgttgtt > 1:543986/1‑70 (MQ=255)
gTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCActc < 1:1144228/38‑1 (MQ=40)
ccGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAATCTGAAACTCCCACGTTGTTc > 1:1958157/1‑65 (MQ=255)
cGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAATCTGAAACTCCCACGTTGTTCAGGAAtt > 1:5140115/1‑71 (MQ=255)
|
TGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGGCACTCTGTGCCAGTAATCTGAAACTCCCACGTTGTTCAGGAATT > minE/2294022‑2294159
|
| 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
