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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,321,698 |
G→A |
13.4% |
T93I (ACC→ATC) |
cdh ← |
CDP‑diacylglycerol phosphotidylhydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,321,698 | 0 | G | A | 13.4%
| 141.6
/ 12.3
| 52 | T93I (ACC→ATC) | cdh | CDP‑diacylglycerol phosphotidylhydrolase |
| Reads supporting (aligned to +/- strand): ref base G (11/34); new base A (3/4); total (14/38) |
| Fisher's exact test for biased strand distribution p-value = 3.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.09e-01 |
TTTTTTGCTCATAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGATATTGCAGTGGGCCATTAA > minE/2321634‑2321767
|
ttttttGCTCATAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGATca > 1:643831/1‑68 (MQ=255)
tttttGCTCATAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTcaaca > 1:597777/1‑70 (MQ=255)
ttGCTCATAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAg < 1:1055227/70‑1 (MQ=255)
cTCATAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACt < 1:868845/71‑1 (MQ=255)
cATAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTc < 1:1898195/58‑1 (MQ=255)
aTAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAg < 1:1994996/64‑1 (MQ=255)
aTAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAg < 1:364095/64‑1 (MQ=255)
aTAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAg < 1:1186693/64‑1 (MQ=255)
aTAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACttt > 1:527648/1‑70 (MQ=255)
tAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTcaaca < 1:311917/60‑1 (MQ=255)
tAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTc < 1:1484017/70‑1 (MQ=255)
aaaTCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGt < 1:634787/71‑1 (MQ=255)
aaaTCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGt < 1:1878162/71‑1 (MQ=255)
gcCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGATCAACAAAGGACTTTCAg > 1:1548325/1‑61 (MQ=255)
cTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAatac < 1:246963/71‑1 (MQ=255)
cTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGATCAACAAAGGACTTTCAGTACCGTTAatac < 1:1687463/71‑1 (MQ=255)
tGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAatac > 1:1642558/1‑70 (MQ=255)
ccaagccaaCCAAAAGAAGTTCGGCGTTGAAGGATCGATCAACAAAGGACTTTCAGTACCGTTAatacga > 1:558970/1‑70 (MQ=255)
ccaaccaaAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAatacga < 1:732519/65‑1 (MQ=255)
ccaaccaaAAGAAGTTCGGCGTTGAAGGATCGATCAACAAAGGACTTTCAGTACCGTTAATACGATACGtt < 1:1125281/71‑1 (MQ=255)
accaaAAGAAGTTCGGCGTTGAAGGATCGGTcaac < 1:180962/35‑1 (MQ=255)
aaaaGAAGTTCGGCGTTGAAGGATCTATCAACAAAGGACTTTCAGTACCGTTAatacgatac < 1:1027673/62‑1 (MQ=255)
aaaGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGtt < 1:1920885/64‑1 (MQ=255)
aaaGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGtt < 1:2149632/64‑1 (MQ=255)
aagaagTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCaa < 1:1283887/71‑1 (MQ=255)
aagaagTTCGGCGTTGAAGGATCGATCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCaa < 1:573516/71‑1 (MQ=255)
agaagTTCGGCGTTGAAGGATCGGTCAACAAAGGa > 1:1592139/1‑35 (MQ=255)
agaagTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTAcc > 1:311565/1‑46 (MQ=255)
agaagTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTAcc > 1:2008223/1‑46 (MQ=255)
agaagTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCaa > 1:1839810/1‑70 (MQ=255)
gaagTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAatacga < 1:1895565/55‑1 (MQ=255)
aagTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAatacg > 1:870667/1‑53 (MQ=255)
aagTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCaa > 1:1376627/1‑68 (MQ=255)
aagTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAg < 1:536455/71‑1 (MQ=255)
aagTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAg < 1:1016894/71‑1 (MQ=255)
aagTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAg < 1:478916/71‑1 (MQ=255)
aagTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAg < 1:239706/71‑1 (MQ=255)
agTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGa < 1:302115/71‑1 (MQ=255)
agTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGa < 1:433389/71‑1 (MQ=255)
gTTCGGCGTTGAAGGATCGGTCAACAACGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGa < 1:1464055/70‑1 (MQ=255)
ggCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGATATTg < 1:186460/71‑1 (MQ=255)
ggCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGATATTg < 1:1506270/71‑1 (MQ=255)
ttGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAatac < 1:1086514/42‑1 (MQ=255)
ttGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGa < 1:1805898/62‑1 (MQ=255)
ttGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGa < 1:2078006/62‑1 (MQ=255)
ttGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATAAGATACGTTGGCATCAACAGATATTGCAGt < 1:647538/71‑1 (MQ=255)
gAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCa > 1:2115089/1‑52 (MQ=255)
gATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGc < 1:530885/47‑1 (MQ=255)
gATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGc < 1:182680/47‑1 (MQ=255)
gATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGc < 1:692898/47‑1 (MQ=255)
gATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGc < 1:7059/47‑1 (MQ=255)
tCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACa > 1:1185462/1‑52 (MQ=255)
ggTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAGCAGATATTGCAGTGGGCCATTaa < 1:1938018/71‑1 (MQ=255)
ggTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGATATTGCAGTGGGCCAtt > 1:1186865/1‑69 (MQ=255)
ggTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGATATTGCAGTGGGCCATTaa < 1:1563513/71‑1 (MQ=255)
ggTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGATATTGCAGTGGGCCATTaa < 1:1824114/71‑1 (MQ=255)
gTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGa < 1:715948/51‑1 (MQ=255)
|
TTTTTTGCTCATAAAATCACGCGCCTGCCAAGCCAACCAAAAGAAGTTCGGCGTTGAAGGATCGGTCAACAAAGGACTTTCAGTACCGTTAATACGATACGTTGGCATCAACAGATATTGCAGTGGGCCATTAA > minE/2321634‑2321767
|
| 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
