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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,915,008 |
C→T |
5.5% |
intergenic (+4/‑91) |
ysaB → / → glyQ |
hypothetical protein/glycine tRNA synthetase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,915,008 | 0 | C | T | 5.5%
| 226.9
/ 2.3
| 72 | intergenic (+4/‑91) | ysaB/glyQ | hypothetical protein/glycine tRNA synthetase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (38/30); new base T (2/2); total (40/32) |
| 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 |
CCGTAAAGAGCAGTTTGTCTGTTCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAAT > W3110S.gb/3914938‑3915073
|
ccGTAAAGAGCAGTTTGTCTGTTCTTTTGACGCGGATGGCCATTTTTTGAATCTTTCCATGAGTTAAGccc > 1:3865007/1‑71 (MQ=255)
aaaGAGCAGTTTGTCTGTTCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCt > 1:1246386/1‑71 (MQ=255)
tttGTCTGTTCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCttt < 1:431435/64‑1 (MQ=255)
tGTCTGTTCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGttt > 1:2383654/1‑71 (MQ=255)
gTTCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGccc > 1:3827324/1‑51 (MQ=255)
gTTCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGccc > 1:4152902/1‑51 (MQ=255)
gTTCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCg < 1:3741464/68‑1 (MQ=255)
gTTCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCg < 1:4047400/68‑1 (MQ=255)
ttCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCg < 1:4697811/62‑1 (MQ=255)
ttCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACt > 1:2353826/1‑71 (MQ=255)
tCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTg > 1:3362693/1‑71 (MQ=255)
tCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTg > 1:1769748/1‑71 (MQ=255)
cTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCTTGCTTTTTCCCGTTTCGTACtc > 1:1002231/1‑69 (MQ=255)
cTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGtt > 1:2523150/1‑62 (MQ=255)
cTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTg < 1:1386110/70‑1 (MQ=255)
ttttGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCg < 1:3263456/64‑1 (MQ=255)
ttttGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGt < 1:2105937/65‑1 (MQ=255)
tttGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCg > 1:3549667/1‑58 (MQ=255)
tGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGtaca < 1:4550274/70‑3 (MQ=255)
aCGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATc < 1:3023552/70‑1 (MQ=255)
aCGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCt < 1:2209655/71‑1 (MQ=255)
gcgGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtc < 1:4036000/71‑1 (MQ=255)
ggATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCg < 1:1630365/55‑1 (MQ=255)
gATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTg < 1:239041/59‑1 (MQ=255)
tGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGta > 1:3884084/1‑59 (MQ=255)
tGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGta > 1:639022/1‑59 (MQ=255)
gCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTa > 1:1673332/1‑52 (MQ=255)
aTTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCgg > 1:2642391/1‑71 (MQ=255)
aTTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCgg > 1:4096296/1‑71 (MQ=255)
aTTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCgg > 1:3314985/1‑71 (MQ=255)
ttttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGt > 1:3620137/1‑47 (MQ=255)
ttttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtccat < 1:2372657/63‑1 (MQ=255)
ttttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtccat < 1:1754150/63‑1 (MQ=255)
ttttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtccat < 1:4630467/63‑1 (MQ=255)
tttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGt > 1:1207244/1‑41 (MQ=255)
tttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtccatcca > 1:3578575/1‑65 (MQ=255)
ttttGCATGTTTCCATGCGTTAAGCTCTGCTTTTTCCCGTTTCGTACTGTacat > 1:1431297/1‑54 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCttttt > 1:1255030/1‑35 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTcc > 1:4988402/1‑37 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTg > 1:2110112/1‑49 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTg > 1:2984810/1‑49 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTacat > 1:2875569/1‑54 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta > 1:1787487/1‑71 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATc > 1:2667539/1‑55 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGta > 1:2996543/1‑71 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGta > 1:1864590/1‑71 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta < 1:1521399/70‑1 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta > 1:2311354/1‑70 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta > 1:3941380/1‑70 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta < 1:3438760/70‑1 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta > 1:5038911/1‑70 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGta < 1:2716401/70‑1 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGta < 1:1794922/70‑1 (MQ=255)
gCATCTTTCCATGCGTTAAGCCTTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATAc > 1:718155/1‑70 (MQ=255)
cATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCg < 1:1044061/39‑1 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTg < 1:3356143/43‑1 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTg < 1:1953873/43‑1 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTg < 1:500268/43‑1 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGtata < 1:1029262/67‑1 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGtata < 1:4919944/67‑1 (MQ=255)
cTTTCCATGCGTTAAGCCTTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCggg < 1:653318/61‑1 (MQ=255)
cTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAg < 1:2695137/57‑1 (MQ=255)
cTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAg < 1:2289176/57‑1 (MQ=255)
cTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAg < 1:1378241/57‑1 (MQ=255)
tttCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGta > 1:3867598/1‑42 (MQ=255)
tttCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACt > 1:2865101/1‑66 (MQ=255)
ttCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCtt > 1:1395177/1‑47 (MQ=255)
ttCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCg > 1:2240750/1‑57 (MQ=255)
tCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTAGTGTATATCTTCCATCCAGCGGGTATACTGATccc > 1:2125753/1‑70 (MQ=255)
tGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGt < 1:1967270/35‑1 (MQ=255)
cGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGtac > 1:2614077/1‑34 (MQ=255)
cGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGtac > 1:3790136/1‑34 (MQ=255)
gTTAAGCCTTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTa < 1:1947958/71‑1 (MQ=255)
aaGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGtata > 1:3182458/1‑52 (MQ=255)
aaGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAAt > 1:1718781/1‑71 (MQ=255)
cTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta < 1:3475198/45‑1 (MQ=255)
|
CCGTAAAGAGCAGTTTGTCTGTTCTTTTGACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAAT > W3110S.gb/3914938‑3915073
|
| 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
