Generation and analysis of expressed sequence tags in the extreme large genomes Lilium and Tulipa

BMC Genomics

Table 3 SNP markers identification for lily and tulip

Genotype(s)	Nr. contigs	Nr. contigs containing at least one SNP*	Nr. SNP markers	Nr. SNP markers
			(no secondary SNP) **	(one secondary SNP) **
Connecticut King	14,773	4,309 (29%)	406 (9.4%)	1,171 (27%)
White Fox	21,898	9,261 (42%)	558 (6%)	1,292 (14%)
Star Gazer	24,700	10,024 (41%)	730 (7%)	2,026 (20%)
Trumpet	26,075	11,298 (43%)	607 (5%)	2,075 (18%)
Cantata	17,646	7,456 (42%)	722 (10%)	2,371 (32%)
Princeps	17,007	7,587 (45%)	690 (10%)	2,510 (33%)
*T. fosteriana*	24,713	11,787 (48%)	1,002 (8.5%)	3,265 (28%)
Kees Nelis	38,716	13,832 (36%)	595 (4.3%)	1,646 (12%)
Ile de France	24,557	6,347 (26%)	310 (5%)	776 (12%)
Bellona	14,325	4,476 (31%)	223 (5%)	535 (12%)
*T. gesneriana*	54,575	20,661 (38%)	822 (4%)	2,033 (10%)

* Percentages of contigs that contain at least one SNP calculated according to the total number of contigs.
** Percentage of SNP markers from total nr. of contigs that contain at least one SNP.
Number of contigs that contain at least one SNP was calculated. SNP markers with 50 bps flanking sequences free of secondary SNP, and with one secondary SNP allowance in the flanking sequences were identified.

ISSN: 1471-2164