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 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,475,665 |
A→T |
34.4% |
T244S (ACC→TCC) |
nrdB → |
ribonucleoside diphosphate reductase 1, beta subunit, ferritin‑like |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,475,665 | 0 | A | T | 34.4%
| 59.9
/ 51.9
| 58 | T244S (ACC→TCC) | nrdB | ribonucleoside diphosphate reductase 1, beta subunit, ferritin‑like |
| Reads supporting (aligned to +/- strand): ref base A (29/9); new base T (9/11); total (38/20) |
| Fisher's exact test for biased strand distribution p-value = 2.26e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.04e-01 |
AGAACGCGAATTGATGGAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGAAAT > minE/1475595‑1475729
|
aGAACGCGAATTGATGGAAGGCAACGCCAAAATTATTCGCCTGATTGCCAGCGACGAAGCCCTGCACCTGa < 1:1696308/71‑1 (MQ=255)
aaTTGATGGAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCAcc > 1:4050549/1‑71 (MQ=255)
tGGAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCa < 1:1933643/70‑1 (MQ=255)
gAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCatat > 1:2415058/1‑71 (MQ=255)
gAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCatat > 1:4019687/1‑71 (MQ=255)
gAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCatat > 1:1856817/1‑71 (MQ=255)
cAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCTGCACCCAGCATATGCTGa < 1:3435938/71‑1 (MQ=255)
cAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCata > 1:27364/1‑65 (MQ=255)
cAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCata > 1:2409515/1‑65 (MQ=255)
cAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGa < 1:2581722/71‑1 (MQ=255)
cAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGa < 1:2782624/71‑1 (MQ=255)
cAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGa < 1:2153528/71‑1 (MQ=255)
cAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGc > 1:2760631/1‑68 (MQ=255)
cAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGc > 1:2381027/1‑68 (MQ=255)
cAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGc > 1:3496697/1‑68 (MQ=255)
aaCGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGaa > 1:479337/1‑71 (MQ=255)
aaCGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGaa > 1:544233/1‑71 (MQ=255)
cGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAAt > 1:3446092/1‑70 (MQ=255)
cGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATc > 1:2997529/1‑71 (MQ=255)
cGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATc > 1:2786424/1‑71 (MQ=255)
cGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATc > 1:3876872/1‑71 (MQ=255)
gCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAATct > 1:3116808/1‑71 (MQ=255)
ccAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAAt > 1:3847034/1‑68 (MQ=255)
ccAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAAt > 1:854641/1‑68 (MQ=255)
ccAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAAt > 1:903938/1‑68 (MQ=255)
attattCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTgcg > 1:3695916/1‑71 (MQ=255)
ttattCGCCTGATTGCCAGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATctgc > 1:2123061/1‑66 (MQ=255)
tCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAgcg > 1:136550/1‑71 (MQ=255)
ccTGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAATCTGCTGCGCAgcggcg < 1:2991391/71‑1 (MQ=255)
tGATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGcgcg > 1:3193270/1‑71 (MQ=255)
tGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTg < 1:697335/50‑1 (MQ=255)
tGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTg < 1:3276048/50‑1 (MQ=255)
gATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGcgcg > 1:3034946/1‑70 (MQ=255)
gATTGCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGcgcg > 1:2236627/1‑70 (MQ=255)
aTTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGcgcg < 1:1052986/69‑1 (MQ=255)
aTTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGcgcg < 1:1296140/69‑1 (MQ=255)
aTTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGcgcg < 1:328083/69‑1 (MQ=255)
gCCCGCGACGAAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAATCCGCTGCGCAGCGGCGCGGACg < 1:2263600/70‑1 (MQ=255)
cccGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGa < 1:3145287/70‑1 (MQ=255)
gacgaAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTga < 1:785782/71‑1 (MQ=255)
gacgaAGCCCTGCACCTGTCCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTga < 1:781035/71‑1 (MQ=255)
gacgaAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTga < 1:1982986/71‑1 (MQ=255)
gaAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGAt > 1:3000900/1‑71 (MQ=255)
gaAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGAt > 1:3113611/1‑71 (MQ=255)
gaAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGAt > 1:3783330/1‑71 (MQ=255)
gaAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGAt > 1:3561668/1‑71 (MQ=255)
aGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATctgc > 1:1085509/1‑41 (MQ=255)
aGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATga > 1:3807341/1‑70 (MQ=255)
cTGCACCTGTCCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGa < 1:3885098/71‑1 (MQ=255)
cTGCACCTGTCCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGa < 1:1212125/71‑1 (MQ=255)
cTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGa < 1:1929052/71‑1 (MQ=255)
cTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGa < 1:3312226/71‑1 (MQ=255)
gCACCTGACCGGCACCCAGCATATGCTGAATCTTCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGaaa > 1:2761962/1‑71 (MQ=255)
gCACATGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGAGCCTGAGATGGCGGaaa > 1:1708579/1‑71 (MQ=255)
cACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGaaa > 1:670780/1‑70 (MQ=255)
cACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGAAAt > 1:3538549/1‑71 (MQ=255)
cACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGAAAt > 1:3282385/1‑71 (MQ=255)
cACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGAAAt > 1:897421/1‑71 (MQ=255)
cACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGAAAt > 1:3325665/1‑71 (MQ=255)
|
AGAACGCGAATTGATGGAAGGCAACGCCAAAATTATTCGCCTGATTGCCCGCGACGAAGCCCTGCACCTGACCGGCACCCAGCATATGCTGAATCTGCTGCGCAGCGGCGCGGACGATCCTGAGATGGCGGAAAT > minE/1475595‑1475729
|
| 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
