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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,826,895 |
C→G |
63.4% |
R46R (CGC→CGG) |
mutS → |
methyl‑directed mismatch repair protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,826,895 | 0 | C | G | 63.4%
| 45.2
/ 49.4
| 60 | R46R (CGC→CGG) | mutS | methyl‑directed mismatch repair protein |
| Reads supporting (aligned to +/- strand): ref base C (17/5); new base G (24/14); total (41/19) |
| Fisher's exact test for biased strand distribution p-value = 3.88e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
GAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTCGGCGGGAGAGCCG > minE/1826833‑1826952
|
gagaTCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTc > 1:2963186/1‑68 (MQ=255)
gctgTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAActgc > 1:3186286/1‑68 (MQ=255)
gctgTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAActgc > 1:2164316/1‑68 (MQ=255)
gTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTgg > 1:2716797/1‑68 (MQ=255)
gTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGa > 1:1261863/1‑69 (MQ=255)
gTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGa < 1:256605/69‑1 (MQ=255)
gTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGa < 1:2443226/69‑1 (MQ=255)
gTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGa > 1:1768370/1‑69 (MQ=255)
ttACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGatat > 1:1369490/1‑69 (MQ=255)
ttACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGata > 1:1827914/1‑68 (MQ=255)
ttACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGa < 1:749723/66‑1 (MQ=255)
ggTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGAc > 1:2950671/1‑68 (MQ=255)
ttttATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAAcgc > 1:3103677/1‑69 (MQ=255)
ttttATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAAcgc > 1:502230/1‑69 (MQ=255)
ttttATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAAcgc > 1:2608307/1‑69 (MQ=255)
ttttATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAAcgc > 1:497762/1‑69 (MQ=255)
ttttATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAAcgc > 1:465829/1‑69 (MQ=255)
ttttATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAAcgc > 1:3212183/1‑69 (MQ=255)
ttttATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAAcgc > 1:1546343/1‑69 (MQ=255)
ttttATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAAcgc > 1:1799245/1‑69 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAAcg > 1:1590058/1‑59 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:3155659/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:2981389/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:393185/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:371913/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:3295606/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:351999/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:3126249/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:3304938/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:26868/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:2578039/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:597146/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:1972785/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:6910/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:1793313/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:77683/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:1429877/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:1407465/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:1406901/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:1284208/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:1174529/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:571037/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:582960/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:630676/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:790233/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:337197/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:2991024/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:2888486/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:2813674/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:2788582/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:2770572/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc > 1:2242917/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:1952447/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:1885065/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:1645150/68‑1 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACAAAACGCGGTGCTTca > 1:2463666/1‑68 (MQ=255)
cTGTTTTATGACGACGCAAAACGGGAGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTca > 1:40441/1‑68 (MQ=255)
tGTTTTATGACGACGCAAAACGGGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTc < 1:238726/67‑1 (MQ=255)
gacgCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTCGGCGGGAGAGCCg < 1:1800260/69‑1 (MQ=255)
gacgCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTCGGCGGGAGAGCCg < 1:1090975/69‑1 (MQ=255)
|
GAGATCCTGCTGTTTTACCGGATGGGTGATTTTTATGAACTGTTTTATGACGACGCAAAACGCGCGTCGCAACTGCTGGATATTTCACTGACCAAACGCGGTGCTTCGGCGGGAGAGCCG > minE/1826833‑1826952
|
| 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
