Table 1.

Sea bass NITR amino acid sites under positive selection identified using different methods

AA positiona	Protein domainb,c	Maximum likelihood method
		PAMLd	FELe	RELf	MECg
7	Signal P.		0.15
9	Signal P.		0.12
46	V_CDR1	0.993	0.02	804.9
48	V_CDR1		0.04	97.3
51	V	0.984		59.2
55	V		0.04	42.5
56	V		0.10	35.8
69	V_CDR2			27.9
70	V_CDR2		0.10
71	V_CDR2	0.987	0.16	112
72	V_CDR2	0.988
73	V_CDR2	0.997		353.6	5.4
79	V	1.00	0.01	3763.6	5.2
80	V		0.12
93	V		0.19
95	V	0.984	0.01	594
101	V	0.987		32.7
117	V_CDR3		0.17
118	V_CDR3	0.999	0.09	30
119	V_CDR3	0.996		184.2	6
120	V_CDR3	0.978		62.1	4.2
121	V_CDR3			31.7
127	V_CDR3		0.09	21.4
130	V		0.10	23.7

^aAmino acid position refers to the sea bass group III alignment reported in Fig. S3 (ESM, Supplementary file 2)

^bFor sea bass V-only NITR genes, the analysis was limited to the leader peptide and V-domain because not all the proteins included in this group present a cytoplasmic fragment

^cV: V-domain, V_CDR1: complementarity determining region 1, V_CDR2: complementarity determining region 2, V_CDR3: complementarity determining region 3, V/C2: I domain, TM: transmembrane domain, Cyt1 and Cyt2: cytoplasmatic domains

^dPosterior probabilities of the BEB analysis

^ep value

^fBayes factor

^gConfidence interval