Table 2.

Assembly statistics from original NGS genome to RACA assembly and combined RACA and FISH assembly

Original assembly
Stats	Budgie	Ostrich	Saker falcon
No. scaffolds longer 10 kbp	1138	1179	731
Total length (Gbp)	1.08	1.22	1.17
N50 (Mbp)	11.41	3.64	4.16
Default RACA assembly
Stats	Budgerigar PCFs	Ostrich PCFs	Saker falcon PCFs
No. PCFs	84	100	95
Total length (Gbp)	1.04	1.17	1.14
N50 (Mbp)	46.54	37.95	39.38
No. chimeric scaffolds	80 (31%)	58 (10%)	50 (10%)
No. used scaffolds	254	588	458
% original assembly	96.29	95.90	97.26
RACA + PCR assembly
Stats	Budgerigar PCFs	Ostrich PCFs	Saker falcon PCFs
No. PCFs	95	136	103
Total length (Gbp)	1.04	1.17	1.14
N50 (Mbp)	37.96	28.09	22.28
No. chimeric scaffolds	55 (21%)	31 (5%)	25 (5%)
No. used scaffolds	254	588	458
% original assembly	96.29	96.02	97.26
RACA + FISH assembly
Stats	Budgerigar chromosomes	Ostrich chromosomes	Saker falcon chromosomes
No. PCFs placed	46	53	64
No. PCFs oriented	28	37	37
Disagreements RACA-FISH	4	0	0
Length placed (bp)	1,013,720,408	969,537,146	1,055,312,481
Length oriented (bp)	844,433,024	869,521,333	790,725,803
% original assembly placed	93.56	79.45	90.12
% original assembly oriented	77.93	71.26	67.52