Fig. 5
From: A hybrid de novo genome assembly of the honeybee, Apis mellifera, with chromosome-length scaffolds
Properties of sequences classified from whole-genome alignments between Amel_HAv3 and Amel_4.5 using Satsuma. a The proportions of the Amel_HAv3 assembly with or without matching sequence in Amel_4.5 is displayed at the top. The first four categories (left-to-right) refer to anchored sequence: blue = alignments between sequences that occur on the same chromosome in both assemblies; green = alignments between sequences that are anchored to chromosomes in Amel_HAv3 but were unplaced in Amel_4.5; yellow = alignments between sequences that have switched chromosomes; grey = unaligned Amel_HAv3 sequence without detected matches in Amel_4.5. The two last categories refer to unplaced sequence: light-grey = alignments between sequences that were not anchored to chromosomes in either assembly; dark-grey = unanchored and unaligned Amel_HAv3 sequence. The amount and proportion of simple repeats and the different classes of interspersed repeats according to the alignment regions in A is show below. b The average mappability, %GC and density of simple and interspersed repeats/low complexity sequence according to the regions in A (95% confidence intervals generated from 2000 bootstrap replicates of 1 kbp non-overlapping windows)