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.

Choose one option:

Precompiled alignments

These alignments are premade for regions of general interest.

New alignments

Generate alignments for a custom genomic region.

From/To require HXB2 coordinates (both ends included).

NOTE: A few minutes might elapse while we prepare your data.