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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
297,667 |
C→T |
32.2% |
R110C (CGT→TGT) |
mdlA → |
fused predicted multidrug transporter subunits and ATP‑binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 297,667 | 0 | C | T | 32.2%
| 84.1
/ 52.4
| 62 | R110C (CGT→TGT) | mdlA | fused predicted multidrug transporter subunits and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base C (21/21); new base T (10/10); total (31/31) |
| 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 |
AACTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTGCCGCCG > minE/297599‑297733
|
aaCTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTTCCTgtgt < 1:3530088/71‑1 (MQ=255)
aaCTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTgtgt < 1:3309645/71‑1 (MQ=255)
cTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCa < 1:3318233/71‑1 (MQ=255)
cTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCa < 1:3737919/71‑1 (MQ=255)
ggCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATc > 1:2608729/1‑71 (MQ=255)
gCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCAt < 1:1521606/69‑1 (MQ=255)
gCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCAt < 1:796335/69‑1 (MQ=255)
gCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCAt < 1:729798/69‑1 (MQ=255)
gCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCAt < 1:1902152/69‑1 (MQ=255)
ttGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc > 1:3234118/1‑71 (MQ=255)
tGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCg > 1:2860085/1‑71 (MQ=255)
gAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATc > 1:35783/1‑64 (MQ=255)
aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGt < 1:1099377/70‑1 (MQ=255)
aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGGCATCGCACCGGTg < 1:24127/71‑1 (MQ=255)
gCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGAcc > 1:1625714/1‑71 (MQ=255)
gCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGAcc > 1:1029266/1‑71 (MQ=255)
gCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGAcc > 1:2119388/1‑71 (MQ=255)
tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCa > 1:4063121/1‑71 (MQ=255)
gAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTc < 1:2914836/52‑1 (MQ=255)
gAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTc < 1:275985/52‑1 (MQ=255)
gAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTc < 1:3433990/52‑1 (MQ=255)
aaGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCa < 1:1850009/52‑1 (MQ=255)
ttattaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTc > 1:2308285/1‑71 (MQ=255)
ttattaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTc > 1:814/1‑71 (MQ=255)
ttattaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCgg > 1:716695/1‑57 (MQ=255)
ttattaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCgg > 1:2016899/1‑57 (MQ=255)
tattaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCg > 1:2704683/1‑71 (MQ=255)
tattaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCg > 1:2709397/1‑71 (MQ=255)
tattaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCg > 1:1836870/1‑71 (MQ=255)
tattaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCg > 1:3805879/1‑71 (MQ=255)
attaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCAcc > 1:280276/1‑53 (MQ=255)
attaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCg > 1:1566534/1‑70 (MQ=255)
attaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGt > 1:3417954/1‑71 (MQ=255)
attaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGt > 1:3941390/1‑71 (MQ=255)
attaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGt > 1:1061224/1‑71 (MQ=255)
attaCCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGt > 1:1354176/1‑71 (MQ=255)
cGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGt < 1:3753299/51‑1 (MQ=255)
tCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTCACCTCATGGCTCGTGCGACCa < 1:2123571/71‑1 (MQ=255)
aGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAAt < 1:3247724/71‑1 (MQ=255)
aGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAAt < 1:2859530/71‑1 (MQ=255)
aGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAAt < 1:2843344/71‑1 (MQ=255)
cTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGa < 1:1460537/71‑1 (MQ=255)
cTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGa < 1:1681676/71‑1 (MQ=255)
tAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGa > 1:3288258/1‑70 (MQ=255)
tAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGa > 1:731168/1‑70 (MQ=255)
ccGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCg < 1:794335/71‑1 (MQ=255)
ccGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCg < 1:4240719/71‑1 (MQ=255)
cGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGa < 1:2051878/71‑1 (MQ=255)
cGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGa < 1:1247576/71‑1 (MQ=255)
cGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGa < 1:1189841/71‑1 (MQ=255)
cGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGa < 1:4084265/71‑1 (MQ=255)
cGGCAGCATCCTGACTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCg < 1:4074016/70‑1 (MQ=255)
aTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGcgtc < 1:4191813/71‑1 (MQ=255)
tCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAAt < 1:1322667/55‑1 (MQ=255)
tCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCg < 1:771212/62‑1 (MQ=255)
cTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGCCGTCGATcgcg > 1:2477594/1‑66 (MQ=255)
cTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCgtg > 1:3819879/1‑71 (MQ=255)
aGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGttt > 1:1292530/1‑71 (MQ=255)
aGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCgtgt < 1:2918556/69‑1 (MQ=255)
aGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCgtgt < 1:800862/69‑1 (MQ=255)
ttACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTgcc > 1:2614234/1‑70 (MQ=255)
tACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTgccgc > 1:3766407/1‑71 (MQ=255)
gCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGtt > 1:3323416/1‑60 (MQ=255)
gCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTGccgccg > 1:98026/1‑68 (MQ=255)
|
AACTGGCTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGTCGATCGCGTCGTGTTTGCCGCCG > minE/297599‑297733
|
| 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
