Bioinformatic analysis of ESTs collected by Sanger and pyrosequencing methods for a keystone forest tree species: oak

Table 7 Statistics for assembly by PartiGene (Sanger ESTs only), MIRA and TGICL (Sanger and 454- ESTs)

	PartiGene	MIRA	TGICL (OakContigV1)
Number of Sanger/454 reads included in assembly	134500/0	125925/1578013	125925/1578013
Number of contigs (average length (bp))	17499 (919)	113625 (671)	69154 (705)
Number of singletons (average length (bp))	23445 (485)	3201^# (236)	153517 (300)
Number of unigene elements (contigs + singletons)	40944	116826	222671
Number of reads in contigs	108626	1511639	1550824

# Debris was excluded. MIRA classified 189,268 reads as debris. If debris is considered as singletons, the number of singletons and unigenes elements by MIRA would become 192,469 and 306,094, respectively.

ISSN: 1471-2164