Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data

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Table 1 Assessment and processing of re-sequencing datasets used in this study

Library	Type^a	Original read length (bp)	Number of reads
Library	Type^a	Original read length (bp)	Initial purity filtered reads	Remaining after low quality trimming	Remaining after adaptor trimming	Remaining after pairing^b
NIAS	SE	36	70,387,992	59,966,207	59,344,842	-
		51	60,164,564	51,717,577	50,981,527	-
CSHL	PE	76	269,062,790	261,197,347	257,096,019	246,779,548 (10,316,471)

^a SE: single-end reads, PE: paired-end reads.
^b The value in parenthesis is the number of unpaired reads for which one of the reads in a pair was discarded during the preprocessing to remove low quality reads.