Table 1.

Summary of the numbers of contigs retained in each step when characterizing the transcriptome of Paradoxornis webbianus bulomachus

Step	Reference-guided assembly		De novo assembly	Total
	Zebra Finch	Chicken
Assembly	14,215	7,508	465,613	487,336
Coverage filtered1	10,076	680	57,035	67,791
BLASTed	9,923	528	16,028	26,479
Of which:
Homology filtered2	6,359	31	1,389	7,779
GO annotated	5,426	50	889	6,365

¹ Contigs filtered with coverage of > 10 X.

² Contigs filtered with similarity (≥ 90%) and alignment length (≥ 200 amino acid residues) with their best matches used to analyze the top-hit species distribution.