TABLE 4.

Sequencing frequencies for MDV microRNAs

MicroRNA	Sequence	% of MDV matches in:
		Tumor samples	MSB1 cells	CEFa
MicroRNAs encoded upstream of meq
mdv1-miR-M12-3p	TTGCATAATACGGAGGGTTCTG	2.3	5.0	0.3
mdv1-miR-M12-5p	AGGCCCTCCGTATAATGTAAATGT	0.2	0.0	NDc
mdv1-miR-M2/5p	GTTGTATTCTGCCCGGTAGTCCG	1.6	1.1	18.9
mdv1-miR-M2*/3p	CGGACTGCCGCAGAATAGCTT	6.9	21.5	1.6
mdv1-miR-M3-5p	ATGAAAATGTGAAACCTCTCCCGC	3.9	2.8	1.3
mdv1-miR-M3-3p	TGGGGGGTTCACATTTTTAAGT	<0.1	0.0	ND
mdv1-miR-M4	TTAATGCTGTATCGGAACCCTTCG	72.0	7.6	20.4
mdv1-miR-M4*	AATGGTTCTGACAGCATGACC	0.1	0.4	0.6
mdv1-miR-M5/3p	TGTGTATCGTGGTCGTCTACTGT	6.3	33.0	6.1
mdv1-miR-M5*/5p	CGTATGCGATCACATTGACACG	<0.1	0.0	1.2
mdv1-miR-M9-5p	TTTTCTCCTTCCCCCCGGAGTTC	0.8	0.1	ND
mdv1-miR-M9-3p	AAACTCCGAGGGCAGGAAAAAG	1.0	0.1	ND
MicroRNAs encoded downstream of meq
mdv1-miR-M1	TGCTTGTTCACTGTGCGGCATT	1.0	3.6	30.1
mdv1-miR-M1*	ATGCTGCGCATGAAAGAGCGA	ND	0.0	ND
mdv1-miR-M32	TGCTACAGTCGTGAGCAGATCAA	<0.1	0.1	1.0
MicroRNAs encoded in the LAT region
mdv1-miR-M6*/5p	TGTTGTTCCGTAGTGTTCTCG	<0.1	0.1	3.8
mdv1-miR-M6/3p	GAGATCCCTGCGAAATGACAGT	0.1	0.1	8.5
mdv1-miR-M7*/5p	TGTTATCTCGGGGAGATCCCGAT	ND	0.0b	ND
mdv1-miR-M7/3p	TCGAGATCTCTACGAGATTACAG	ND	0.0	11.0
mdv1-miR-M8*/5p	TATTGTTCTGTGGTTGGTTTCGA	3.5	23.5	1.1
mdv1-miR-M8/3p	GTGACCTCTACGGAACAATAGT	0.1	0.9	4.9
mdv1-miR-M10-5p	GCGTTGTCTCGTAGAGGTCCAG	0.1	0.0	0.2
mdv1-miR-M10*/3p	TCGAAATCTCTACGAGATAACAGTT	ND	0.0	0.4

^aCEF library data were extracted from a previous study (4) and were obtained by sequencing with the 454 system, while the tumor and MSB1 libraries were sequenced more deeply by Illumina.

^bFor the MSB1 cells, 0.3% of the reads matched a sequence variant of mdv1-miR-M7*/5p containing the C→T mutation at position 142526.

^cND, not determined.