Syntenator: Multiple gene order alignments with a gene-specific scoring function

Table 1 Syntenator multiple gene order alignments

Alignment order: MRHD	Mouse	Rat	Human	Dog
Number of blocks	304	301	289	328
Mean length	48.2	41.4	44.8	42.7
Genes in alignments	14665 (60%)	12451 (53%)	12933 (56%)	14018 (77%)
Block size in Mb	1820.1	1832.0	2416.6	1694.4
Alignment order: HDMR	Mouse	Rat	Human	Dog
Number of blocks	367	397	345	331
Mean length	42.6	45.7	42.6	36.3
Genes in alignments	15650 (64%)	18151 (78%)	14698 (63%)	12036 (66%)
Block size in Mb	1772.6	1923.6	2438.4	1815.4

Two alternative Syntenator multiple gene order alignments of mouse (M), rat (R), human (H) and dog (D) are shown to demonstrate the dependence of the alignment outcome on the alignment order of species. The proportion of genes in alignments relative to the total gene set is shown in percentage. The mean length of a block is the ratio of Genes in alignments/Number of blocks.

ISSN: 1748-7188