A SNP resource for Douglas-fir: de novotranscriptome assembly and SNP detection and validation

BMC Genomics

Table 3 Comparison between Douglas-fir isotigs and white spruce unigenes[16]

					Number of isotigs
Class^*	No. of WS matches^†	Do other DF match the same WS?^§	Do other matching DF overlap?^‡	Isotig confidence^#	I1 subset (1 isotig per isogroup) (18,774)	IM subset (>1 isotig per isogroup) (19,815)	Example visual representations^@
C1	1	No	-	Highest	5140	261
C2	2+	No	-	Higher	896	88
C3	1	Yes	No	Higher	1767	577
C4	2+	Yes	No	Medium	586	159
C5	1	Yes	Yes	Lower	1736	6974
C6	2+	Yes	Yes	Lowest	3405	7040
	Subtotal	-	-	-	13,530	15,099
C7	No matches	-	-	Unknown	5244	4716

^*Douglas-fir (DF) isotigs were categorized into seven classes (C1-C7) and three levels of confidence based on their relationships to white spruce (WS) contigs using the SCARF program [68].
^†Number of white spruce contigs that matched the Douglas-fir query.
^§‘Yes’ indicates that at least one non-query isotig also matched the same white spruce contig.
^‡‘Yes’ indicates that the query and at least one non-query isotig matched the same region of the white spruce contig (overlapped).
^#Subjective level of confidence in the isotig assembly based on the information presented in columns 2–4.
^@Cross-hatched bars represent white spruce contigs, black bars represent query Douglas-fir isotigs, and white bars represent non-query Douglas-fir isotigs.

ISSN: 1471-2164