Figure 2.

Reassembly of highly identical homeologous soybean BACs. Output of Phred/Phrap batch re-assembly of traces from gmw1-105h23 and gmw1-15k6 as viewed using Consed. Grey boxes represent the assembled contigs and are scaled in base pairs across each contig. Contig numbers are shown in pink boxes and are arbitrarily assigned by Phred/Phrap during sequence assembly. The blue and green boxes above each assembly show the predicted gene positions for gmw1-15k6 and gmw1-105h23, respectively. The green line-plot above each contig shows the average clone pair consistency. Sequence matches within and between contigs were determined with Cross-Match as part of Consed. Black lines within and between contigs show sequence matches that are in reverse orientation, while the orange lines show sequence matches in the same orientation. The bars between sequence matches correspond to the length of the match. Purple peak-shaped lines between contigs show clone pairs that span a gap. Below each contig is a purple line containing either blue (gmw1-15k6) or green (gmw1-105h23) tick marks; these are the tags that distinguish between traces from each BAC.