Mapping result
Reads can be mapped to linear and circular chromosomes. Read mappings to circular genomes are visualized linearly as shown in figure 25.19.
Figure 25.19: Mapping reads to a circular chromosome. Reads that are marked with double arrows at the ends are reads that map across the starting point of the sequence. The arrows indicate that the alignment continues at the other end of the reference sequence.
Reads that map across the starting point of the sequence are shown both at the start and end of the reference sequence. Such reads are marked with » at the end of the read to indicate that the alignment continues at the other end of the reference sequence.
Mapping results can either be tracks (
) (see Tracks) or mapping tables (
) or single mappings (
). This section explains more about the latter two.
Subsections
- Mapping table
- View settings in the Side Panel
- Output from the mapping
- Extract parts of a mapping
- Find broken pair mates