Table 1. Presence of pseudogenes in representative families of duplicated genes of Trichomonas.

protein family	average length in aa	family size	assembly boundary	genes with stops or FSa	truncated genesb	percentage of pseudogenesc
Dynein heavy chain family protein	3937	22	1	0	1	5%
transmembrane adenylyl cyclases	1550	123	12	56	4	46%
cyclic nucleotide phosphodiesterase	1134	41	2	1	7	18%
Clan SB, family S8, subtilisin-like serine peptidase	868	31	6	2	2	16%
Adaptin N terminal region family protein	811	51	2	3	1	6%
ABC transporter family protein	614	64	7	11	8	32%
Dolichol-phosphate-mannose-protein mannosyltransferase	479	31	0	1	1	6%
major facilitator superfamily protein	403	48	1	9	1	21%
Clan CA, family C1, cathepsin L-like cysteine peptidase	286	44	2	1	6	17%
small Rab GTPase	203	184	3	3	3	3%
small GTP-binding protein	193	39	0	1	2	5%
ADP-ribosylation factor	181	24	0	2	0	8%

^aFS: frame shift.

^btruncated genes: those whose length is between 30% to 70% of the length of a complete gene.

^cpseudogenes: those containing stops and/or frame shifts and/or truncations that cannot be explained by assembly issues.