Local haplotypes are used to study the joint evolution of sites within a genomic region, such as proteins or RNA structures.
They contain linkage information on neighbouring sites within approximately 400 bp. They are derived directly from the reads without any post-processing beyond trimming.
Keep in mind that although we tried to minimize the number of PCR cycles, some in vitro recombination is expected.
These alignments are premade for regions of general interest.
Generate alignments for a custom genomic region.