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Most had conserved domains that were maintained, while flanking sequences were greatly diverged.
Identified SNMs and small indels were annotated using Ensembl's variant effect predictor (VEP) while flanking regions were determined using the fill-fs program from the VCFtools package (Li and Durbin 2009; McLaren et al. 2010).
The same orientation of monomers relative to flanking regions can be observed in almost all arrays, while flanking modules and monomers together are positioned in both directions with respect to the orientation of genomic sequences.
5' flanking region includes both 592 bp promoter and 144 bp 5' UTR, while 3' flanking region indicates 3' UTR.
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