Figure 4

Summary of the scoring criteria introduced to weigh the relative position of predicted transcriptional signals in IgRs. An IgR with a co-oriented putative promoter and a terminator separated from by 40–500 bp each other was scored 10. Every promoter-terminator pair matching the previous criterion within a single IgR was rated individually and summed to calculate the global score of that IgR. Orphan promoters were scored 3. Putative promoters were rated 2 if the 5'-end of the co-oriented flanking CDS was farther than 300 bp, 1 if this distance was 200–300 bp and 0, if they were closer than 200 bp. Orphan terminators were scored 3. Predicted terminators co-oriented with flanking ORFs were scored according to their relative distance to the 3'-end of the corresponding annotated gene, so that a score of 2 was assigned if the terminator was farther than 200 bp, 1 if the distance was 100–200 nt, and 0 if it was closer than 100 bp.