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 |
2,864,584 |
C→T |
14.0% |
A295A (GCC→GCT) |
hflK → |
modulator for HflB protease specific for phage lambda cII repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,864,584 | 0 | C | T | 14.0%
| 174.0
/ 17.1
| 64 | A295A (GCC→GCT) | hflK | modulator for HflB protease specific for phage lambda cII repressor |
| Reads supporting (aligned to +/- strand): ref base C (24/31); new base T (4/5); total (28/36) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCAACGAAGTTCAGCCGCGTGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGCCG > minE/2864514‑2864651
|
ccAACGAAGTTCAGCCGCGTGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGcc < 1:2760352/71‑1 (MQ=255)
aaCGAAGTTCAGCCGCGTGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCa < 1:2064772/71‑1 (MQ=255)
cAGCCGCGTGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCt > 1:3344935/1‑71 (MQ=255)
cAGCCGCGTGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCt > 1:1285499/1‑71 (MQ=255)
ccGCGTGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTgg > 1:3370000/1‑70 (MQ=255)
ccGCGTGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTgg > 1:2184930/1‑70 (MQ=255)
ccGCGTGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTgg > 1:1441571/1‑70 (MQ=255)
tGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTc < 1:2158384/71‑1 (MQ=255)
tGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTc < 1:370184/71‑1 (MQ=255)
tGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTc < 1:4013714/71‑1 (MQ=255)
tGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTc < 1:1995691/71‑1 (MQ=255)
cGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCa < 1:532261/70‑1 (MQ=255)
cGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCTCAGACCATCCTGGAAGCTCAGGGTg < 1:4040995/71‑1 (MQ=255)
cGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCTCAGACCATCCTGGAAGCTCAGGGTg < 1:1952255/71‑1 (MQ=255)
cGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCTCAGACCATCCTGGAAGCTCAGGGTg < 1:1483321/71‑1 (MQ=255)
cGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCTCAGACCATCCTGGAAGCTCAGGGTg < 1:1065807/71‑1 (MQ=255)
cGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCTCAGACCATCCTGGAAGCTCAGGGTg < 1:2078050/71‑1 (MQ=255)
cGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTg < 1:879235/71‑1 (MQ=255)
ggTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGa < 1:1381319/71‑1 (MQ=255)
tCAGGCGCAACGTATCCTCGAAGCGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAgg > 1:715833/1‑65 (MQ=255)
tCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAgg > 1:1068174/1‑65 (MQ=255)
tCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAgg > 1:2490352/1‑65 (MQ=255)
tCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAgg > 1:75109/1‑65 (MQ=255)
tCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAgg > 1:1554845/1‑65 (MQ=255)
tCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAg > 1:3232403/1‑71 (MQ=255)
cGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCa > 1:2542778/1‑40 (MQ=255)
cGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTgg > 1:3103890/1‑46 (MQ=255)
cGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAg > 1:2476451/1‑54 (MQ=255)
cGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTg < 1:3111884/58‑1 (MQ=255)
cGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCtt < 1:849785/71‑1 (MQ=255)
cGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCtt < 1:3840120/71‑1 (MQ=255)
cGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCtt < 1:2889028/71‑1 (MQ=255)
cGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCtt < 1:4022322/71‑1 (MQ=255)
cGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCtt < 1:2042699/71‑1 (MQ=255)
tATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa > 1:2538457/1‑58 (MQ=255)
tATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa > 1:3996691/1‑58 (MQ=255)
tATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa > 1:3535501/1‑58 (MQ=255)
tATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa > 1:1036279/1‑58 (MQ=255)
tATCCTCGAAGAGGAGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAggg > 1:3844344/1‑54 (MQ=255)
tCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGa < 1:1453353/55‑1 (MQ=255)
tCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGa < 1:3643733/55‑1 (MQ=255)
cTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCTCGCTTTGCTa < 1:1367011/70‑1 (MQ=255)
cTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTa < 1:1707157/70‑1 (MQ=255)
gAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAAc < 1:2678219/70‑1 (MQ=255)
gAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACt < 1:4039567/71‑1 (MQ=255)
gAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACt < 1:913597/71‑1 (MQ=255)
gAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACt < 1:1057811/71‑1 (MQ=255)
tgcgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa < 1:2401120/40‑1 (MQ=255)
tgcgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa < 1:1633751/40‑1 (MQ=255)
tgcgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa < 1:1641408/40‑1 (MQ=255)
tgcgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa < 1:1662008/40‑1 (MQ=255)
tgcgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa < 1:555550/40‑1 (MQ=255)
tgcgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa < 1:1675678/40‑1 (MQ=255)
tgcgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa < 1:2606053/40‑1 (MQ=255)
tgcgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa < 1:3875039/40‑1 (MQ=255)
tgcgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGaa < 1:3713176/40‑1 (MQ=255)
tgcgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCtt > 1:3682442/1‑51 (MQ=255)
tgcgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGaa > 1:2942485/1‑70 (MQ=255)
cgtACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAata > 1:2418086/1‑70 (MQ=255)
cAAGGCTCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAg > 1:4053434/1‑71 (MQ=255)
cAAGGCTCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAg > 1:2926478/1‑71 (MQ=255)
cAAGGCTCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAg > 1:1190016/1‑71 (MQ=255)
aaGGCTCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGc > 1:1839895/1‑71 (MQ=255)
ggCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTg > 1:3664645/1‑44 (MQ=255)
ggCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGCcg > 1:3517229/1‑71 (MQ=255)
|
CCAACGAAGTTCAGCCGCGTGCGAACGGTCAGGCGCAACGTATCCTCGAAGAGGCGCGTGCGTACAAGGCCCAGACCATCCTGGAAGCTCAGGGTGAAGTGGCGCGCTTTGCTAAACTTCTGCCGGAATATAAAGCCG > minE/2864514‑2864651
|
| 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
