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 |
2,294,017 |
T→A |
22.3% |
intergenic (+44/‑231) |
gldA → / → yijF |
glycerol dehydrogenase, NAD/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,294,017 | 0 | T | A | 22.3%
| 95.5
/ 22.7
| 49 | intergenic (+44/‑231) | gldA/yijF | glycerol dehydrogenase, NAD/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (19/19); new base A (3/8); total (22/27) |
| Fisher's exact test for biased strand distribution p-value = 3.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.00e-01 |
AGCGTTTCCTGCAAGAGTGGGAATAACCTACTCCAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTG > minE/2293948‑2294083
|
aGCGTTTCCTGCAAGAGTGGGAATAACCTACTCCAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAAt > 1:3363786/1‑70 (MQ=255)
agagTGGGAATAACCTACTCCAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTa > 1:5656924/1‑71 (MQ=255)
tGGGAATAACCTACTCCAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCt < 1:3310428/71‑1 (MQ=255)
ggAATAACCTACTCCAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCtt < 1:3205349/70‑1 (MQ=255)
ggAATAACCTACTCCAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTa < 1:1404335/71‑1 (MQ=255)
ggAATAACCTACTCCAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTa < 1:3821979/71‑1 (MQ=255)
ggAATAACCTACTCCAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTa > 1:4039048/1‑71 (MQ=255)
aaCCTACTCCAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAgg > 1:2207878/1‑71 (MQ=255)
aCCTACTCCAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGc > 1:791442/1‑71 (MQ=255)
aCTCCAATCTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTAc > 1:5379214/1‑71 (MQ=255)
cAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCaa > 1:2816222/1‑71 (MQ=255)
aCTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAAtct > 1:1456124/1‑71 (MQ=255)
cTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCa < 1:3503152/66‑1 (MQ=255)
cTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCa < 1:5360329/66‑1 (MQ=255)
cTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCa < 1:147098/66‑1 (MQ=255)
ggCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCa > 1:4320852/1‑70 (MQ=255)
gCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTa < 1:3322978/47‑1 (MQ=255)
ttGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCaa < 1:4947334/68‑1 (MQ=255)
ttGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAata > 1:4860091/1‑70 (MQ=255)
ttGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAata > 1:1397808/1‑70 (MQ=255)
tGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACCCTTATCAg < 1:5208743/48‑1 (MQ=255)
gTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAatatat > 1:2165227/1‑71 (MQ=255)
gggAGTTTGAAGGCAAAATTGCCTGATGCGCTACGCTTTTCAGGCCt < 1:1375929/47‑1 (MQ=17)
gggAGTTTGAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTg < 1:2340155/69‑1 (MQ=255)
ggAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTg < 1:650623/68‑1 (MQ=255)
aGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAAt < 1:3568451/69‑1 (MQ=255)
gTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTg > 1:2191214/1‑71 (MQ=255)
tttGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAatata < 1:327036/61‑1 (MQ=255)
ttGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAAt > 1:3972747/1‑48 (MQ=255)
ttGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAAt > 1:5078741/1‑48 (MQ=255)
tGAACGCAAAATTGCCTGATGCGCTACGCTTATCa > 1:1166492/1‑35 (MQ=37)
tGAACGCAAAATTGCCTGATGCGCTACGCTTATCa > 1:2506994/1‑35 (MQ=37)
cGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCtt > 1:3491545/1‑71 (MQ=255)
cGCAAAAATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCaa < 1:3392733/51‑1 (MQ=14)
cGCAAAAATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCtt < 1:2258950/71‑1 (MQ=255)
cGCAAAAATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCtt < 1:3711802/71‑1 (MQ=255)
cGCAAAAATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCtt < 1:3338977/71‑1 (MQ=255)
cGCAAAAATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCtt < 1:4396510/71‑1 (MQ=255)
gCAAAAATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAat > 1:4557979/1‑51 (MQ=14)
gCAAAAATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCttt < 1:4666928/71‑1 (MQ=255)
cAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGc > 1:3312632/1‑63 (MQ=255)
aaaaTTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTg > 1:5264793‑M2/1‑70 (MQ=255)
aaaaATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATctct > 1:1819627/1‑44 (MQ=14)
aaaaATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGATTTTGCGTGCTTTTg > 1:5198063‑M2/1‑70 (MQ=255)
aaaaATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTg < 1:5487399‑M2/71‑2 (MQ=255)
aaaaATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTg < 1:1393426‑M2/71‑2 (MQ=255)
aaaaTGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTg < 1:44739‑M2/70‑2 (MQ=255)
aaaTTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAAttt < 1:4161666/59‑1 (MQ=255)
aaaTTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAAttt < 1:4476929/59‑1 (MQ=255)
aaaTTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTg < 1:5504369/60‑1 (MQ=255)
aaTTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGa < 1:4782298/54‑1 (MQ=255)
|
AGCGTTTCCTGCAAGAGTGGGAATAACCTACTCCAAACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTG > minE/2293948‑2294083
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
