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 |
412,564 |
A→C |
75.0% |
intergenic (‑209/+80) |
leuS ← / ← lnt |
leucyl‑tRNA synthetase/apolipoprotein N‑acyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 412,564 | 0 | A | C | 75.0%
| 99.0
/ 21.0
| 48 | intergenic (‑209/+80) | leuS/lnt | leucyl‑tRNA synthetase/apolipoprotein N‑acyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (9/3); new base C (20/16); total (29/19) |
| Fisher's exact test for biased strand distribution p-value = 3.16e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
ATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTAAGTTAACGACCCGGGAGATGAAACGGCATCCGGTGAGCGTGCCGAAATATGGGATGTATTCCGGCACGA > minE/412499‑412633
|
aTTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGtt > 1:865419/1‑70 (MQ=255)
aTTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTAAAGTCAGtt > 1:4312707/1‑70 (MQ=255)
tAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTAAc > 1:2356132/1‑71 (MQ=255)
aaTTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTAAc > 1:1339761/1‑70 (MQ=255)
aaTTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTAAc < 1:5446104/70‑1 (MQ=255)
aTTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAg < 1:1552750/64‑1 (MQ=255)
aTTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAg < 1:2528471/64‑1 (MQ=255)
ttACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGtt < 1:3149465/64‑1 (MQ=255)
tACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAg > 1:3154624/1‑61 (MQ=255)
tACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAg > 1:4392056/1‑61 (MQ=255)
aCAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGAccc < 1:1582794/70‑1 (MQ=255)
gagTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGACCCGGga < 1:2790775/71‑1 (MQ=255)
agTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGAcc > 1:3607345/1‑65 (MQ=255)
agTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGAcc > 1:500724/1‑65 (MQ=255)
gtgGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTAAGTTAACGACCCGGGAGATGa < 1:4998281/70‑1 (MQ=255)
gggCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGACCCGGGAGATGAAAc > 1:2246144/1‑71 (MQ=255)
tATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGACCCGGGAGATGAAACg < 1:1099357/67‑1 (MQ=255)
ttAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAg > 1:930309/1‑42 (MQ=255)
ttAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAg > 1:3078737/1‑42 (MQ=255)
ttAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTa < 1:265076/45‑1 (MQ=255)
ttAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTa < 1:4826649/45‑1 (MQ=255)
ttAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTa < 1:2974816/45‑1 (MQ=255)
ttAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTa < 1:3069223/45‑1 (MQ=255)
ttAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTCAGTTa < 1:2144831/45‑1 (MQ=255)
ttAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTAAGTTAACGACCCGGGAGATGAAACGGCATc < 1:2033952/70‑1 (MQ=255)
agcaaagcaaGGAACAAAGAACGTCTATTATTATAGTCAg > 1:5129627/1‑40 (MQ=255)
agcaaagcaaGGAACAAAGAACGTCTATTATTATAGTCAg > 1:329951/1‑40 (MQ=255)
agcaaagcaaGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGACCCGGGAGAt > 1:1860628/1‑57 (MQ=255)
agcaaagcaaGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGACCCGGGAGAt > 1:228747/1‑57 (MQ=255)
agcaaagcaaGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGACCCGGGAGATGAAACgat > 1:3233202/1‑63 (MQ=255)
agcaaagcaaGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGACCCGGGAGATGAAACgat > 1:2018026/1‑63 (MQ=255)
caaagcaaGGAACAAAGAACGTCTATTATTATAGTCAg < 1:418194/38‑1 (MQ=255)
gcaaGGAACAAAGAACGTCTATTATTATAGTCAGTTaa > 1:59228/1‑38 (MQ=255)
gcaaGGAACAAAGAACGTCTATTATTATAGTCAGTTaa > 1:2529939/1‑38 (MQ=255)
gcaaGGAACAAAGAACGTCTATTATTATAGTCAGTTaa > 1:4884259/1‑38 (MQ=255)
aaGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGACCCGGga < 1:3936509/46‑1 (MQ=255)
aaGGAACAAAGAACGTCTATTATTATAGTCAGTTAACGACCCGGga < 1:3943331/46‑1 (MQ=255)
aGGAACAAAGAACGTCTATTATTATAGTAAGTTAACGACCCGGGAGATGAAACGGCATCCGGTGAGCGTGc > 1:3087334/1‑71 (MQ=255)
ggAACAAAGAACGTCTATTATTATAGTAAGTTAACGACCCGGGAGATGAAACGGCATCCGGTGAGCGTGcc > 1:2898740/1‑71 (MQ=255)
aaaGAACGTCTATTATTATAGTCAGTTAACGACCCggg < 1:5499309/38‑1 (MQ=255)
aaaGAACGTCTATTATTATAGTAAGTTAACGACCCGGGAGATGAAACGGCATCCGGTGAGCGTGCCGaaa > 1:2321233/1‑70 (MQ=255)
aaaGAACGTCTATTATTATAGTAAGTTAACGACCCGGGAGATGAAACGGCATCCGGTGAGCGTGCCGaaa > 1:2247054/1‑70 (MQ=255)
aaCGTCTATTATTATAGTAAGTTAACGACCCGGGAGATGAAACGGCATCCGGTGAGCGTGCCGAAATATgg < 1:3641835/71‑1 (MQ=255)
aCGTCTATTATTATAGTAAGTTAACGACCCGGGAGATGaaa > 1:4270683/1‑41 (MQ=255)
tCTATTATTATAGTAAGTTAACGACCCGGGAGATGAAACGGCATCCGGTGAGCGTGCCGAAATATGGGATg > 1:4603936/1‑71 (MQ=255)
ataGTAAGTTAACGACCCGGGAGATGAAACGGCATCCGGTGAGCGTGCCGAAATATGGGATGTATTCCgg > 1:3816750/1‑70 (MQ=255)
tAAGTTAACGACCCGGGAGATGAAACGGCATCCGGTGAGCGTGCCGAAATATGGGATGTATTCCGGCACGa > 1:3182209/1‑71 (MQ=255)
tAAGTTAACGACCCGGGAGATGAAACGGCATCCGGTGAGCGTGCCGAAATATGGGATGTATTCCGGCACGa > 1:286313/1‑71 (MQ=255)
|
ATTAATTTACAGAGTTTGTGGGCGTATTAGCAAAGCAAGGAACAAAGAACGTCTATTATTATAGTAAGTTAACGACCCGGGAGATGAAACGGCATCCGGTGAGCGTGCCGAAATATGGGATGTATTCCGGCACGA > minE/412499‑412633
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
