aTRAM - automated target restricted assembly method: a fast method for assembling loci across divergent taxa from next-generation sequencing data

Table 2 Results from assembling 1,107 1:1 orthologous genes using aTRAM across different species of lice

Suborder, species	Years	Contigs	Reciprocal
Suborder, species	Divergent		Best-BLAST
Anoplura, Pedicinus badii	25 – 30^a	1091 (98.6%)	1068 (96.5%)
Anoplura, Haematopinus eurysternus	65 - 70^a	1089 (98.4%)	1048 (94.7%)
Anoplura, Linognathus spicatus	65 - 70^a	1082 (97.7%)	1031 (93.1%)
Anoplura, Proechinopthirus fluctus	75 - 80^a	1090 (98.5%)	1026 (92.7%)
Ischnocera, Brueelia antiqua	~110^b	1102 (99.5%)	1060 (95.8%)
Ischnocera, Columbicola liva	~110^b	1074 (97.0%)	1053 (95.1%)

Years divergent from the reference taxon were estimated in millions of years from a). Light et al. [23] and b) Smith et al. [24]. Contigs are the number of the 1,107 queries that assembled contigs in aTRAM. The final column has the number of contigs that passed a Reciprocal best-BLAST test against the entire Pediculus humanus protein coding genome.

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