tRAX
Mismatch Track Hub: Spn_CSP
This track hub description is automatically generated
by the program tRAXtracks.py. It contains information on the provided tracks and
on the code that created this track hub.
Experiment information:
PLEAE UPDATE
Available assemblies:
strePneu_TIGR4_ATCCBAA_334
- TIGR4_3hr mismatch
- TIGR4_3hr_+AlkB mismatch
- TIGR4_3hr_+CSP mismatch
- TIGR4_3hr_+CSP_+AlkB mismatch
Mismatch tracks:
Mismatch tracks show the fraction of mismatching and
deleted bases at each position in the reads aligned to the specific tRNA,
overlaid on the coverage value at each position.
Mismatch color key:
|
Actual base |
|
A mismatch |
|
G mismatch |
|
T mismatch |
|
C mismatch |
|
Deletion |
Methods and data sources:
Data inputs: samtools mpileup files from aligned sequencing reads, the genome
assembly name(s), and the chromosome size file(s) for the assembly downloaded
from the UCSC genome browser ftp site.
Calculations and visualization: The abundance of
mismatch, reference and deletion characters is averaged across grouped mpileup files. Mismatch, reference
and deletion abundance is split into separate bigWig
files, then stacked inside a multiWig container.