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 |
|
A1 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,473,895 |
A→G |
71.4% |
E162G (GAG→GGG) |
trmA → |
tRNA (uracil‑5‑)‑methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,473,895 | 0 | A | G | 71.4%
| 62.7
/ 29.2
| 42 | E162G (GAG→GGG) | trmA | tRNA (uracil‑5‑)‑methyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (4/8); new base G (17/13); total (21/21) |
| Fisher's exact test for biased strand distribution p-value = 3.06e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.27e-01 |
CGCGATGCACTGCGCGCGCAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGAGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAAGAGATGATCTACCGTCAGGTAG > W3110S.gb/3473828‑3473963
|
cgcgATGCACTGCGCGCGCAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCt > 1:2709679/1‑71 (MQ=255)
cACTGCGCGCGCAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAg > 1:553833/1‑71 (MQ=255)
cACTGCGCGCGCAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAg < 1:273863/71‑1 (MQ=255)
cACTGCGCGCGCAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAg < 1:1954498/71‑1 (MQ=255)
tGCGCGCGCAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATc < 1:824313/66‑1 (MQ=255)
cgcgcgcAGAATCTGAATGTGCATCTGATTGGTCGGGCAACTAAAACCTAAATCGAGCTGGATCAGGATTa < 1:2683055/71‑1 (MQ=255)
cgcgcgcAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGAtt > 1:2746583/1‑70 (MQ=255)
cgcgcgcAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTa > 1:1220863/1‑71 (MQ=255)
cgcgcgcAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTa < 1:261753/71‑1 (MQ=255)
cgcgcgcAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTa > 1:2596303/1‑71 (MQ=255)
cgcgcgcAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGAGCTGGATCAGGATTa < 1:1614877/71‑1 (MQ=255)
gAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTACATCGATg < 1:78377/71‑1 (MQ=255)
tCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAAc > 1:1585510/1‑71 (MQ=255)
cTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGAGCTGGATCAGGa > 1:1237045/1‑56 (MQ=255)
cTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGAGCTGGATCAGGa > 1:1971792/1‑56 (MQ=255)
tGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAACGt > 1:96775/1‑71 (MQ=255)
gtgCATCTGATTGGTCGGGCAACGAAAACCAAAATCGAGCTGGATCAGGATTACATCGATGaa > 1:166411/1‑63 (MQ=255)
tgCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTgg < 1:57469/42‑1 (MQ=255)
tgCATCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTACATCGa > 1:617624/1‑58 (MQ=255)
tgCATCTGATTGGTCGGGCAACGAAAACCAAAATCGAGCTGGATCAGGATTACATCGATGAACg < 1:72337/64‑1 (MQ=255)
tgCATCTGATTGGTCGGGCAACGAAAACCAAAATCGAGCTGGATCAGGATTACATCGATGAACg < 1:1399398/64‑1 (MQ=255)
tCTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGAt < 1:2432326/46‑1 (MQ=255)
cTGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAACGt > 1:1799806/1‑60 (MQ=255)
tGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCg > 1:569648/1‑69 (MQ=255)
tGATTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCg > 1:566358/1‑69 (MQ=255)
tGATTGGACGGGCAACGAAAACCAAAATAGGTCTGGAta > 1:1698628/1‑38 (MQ=21)
aaTTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGaa > 1:623519/2‑55 (MQ=255)
aTTGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAgg > 1:1066419/1‑71 (MQ=255)
tGGTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTa > 1:333794/1‑42 (MQ=255)
ggTCGGGCAACGAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGa < 1:2453458/70‑1 (MQ=255)
gggCAACGAAAACCAAAATCGGGCTGGATCATGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAaga < 1:2018838/70‑1 (MQ=255)
gggCAACGAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAaga < 1:1016961/70‑1 (MQ=255)
aCGAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGa < 1:529890/61‑1 (MQ=255)
gAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAAGAGATGATc > 1:1811202/1‑70 (MQ=255)
gAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAAGAGATGATc > 1:2515356/1‑70 (MQ=255)
gAAAACCAAAATCGGGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAAGAGATGATCt < 1:2449333/71‑1 (MQ=255)
aCCAAAATCGAGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAAGAGATGATCTAc < 1:1204936/69‑1 (MQ=255)
aaaaTCGGGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAaga < 1:758166/56‑1 (MQ=255)
aaaTCGAGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAaga < 1:519022/55‑1 (MQ=255)
aaaTCGAGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAaga < 1:809293/55‑1 (MQ=255)
aaTCGAGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAAGAgatga < 1:46842/59‑1 (MQ=255)
gAGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAAGAGATGATCTACCGTCAGGTAg > 1:2791733/1‑70 (MQ=255)
|
CGCGATGCACTGCGCGCGCAGAATCTGAATGTGCATCTGATTGGTCGGGCAACGAAAACCAAAATCGAGCTGGATCAGGATTACATCGATGAACGTCTGCCGGTCGCAGGGAAAGAGATGATCTACCGTCAGGTAG > W3110S.gb/3473828‑3473963
|
| 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
