PacBio fasta files - chr 2 Atlantic cod

79 breakpoint regions witin chromsome 2 of the Atltantic cod was sequenced using HiFi-sequencing, which creates accurate long reads known as HiFi reads. In doing so, I could use multiple, accurate, HiFi sequencing reads to (1) align each breakpoint read to the gadmor3 and coastal reference genome and then (2) make de novo haplotype assemblies for the breakpoint regions for different individuals with the inverted and non-inverted allele. The haplotype assemblies were used in a multiple sequence alignment, and I could pinpoint where the breakpoints are and that they are conserved and fixed within and between populations.<br><br>Here I´ve uploaded the fasta files that were used in making de novo haplotype assemblies.