Table 3.

Predicted pre-miRNA sequences in the IIV-9 genome^c

miRNAa	Start siteb	Apex nucleotide	Sequence (5′–3′) (length [bp])	VMir score	% G+C	MiPred MFE	P value	MiPred % conf
MR171	11099	1134	CAAAGUCGACUCUUCCACUCGGAAAUGUGAAUGGUUUCCGAGUAAAAGCUGAAGAAAUGACUUUG (65)	130	42	−23.6	0.001	63
MR529	31179	31212	AAUGGGGUGUGUGAUGGAAUUGGAUUACCCACCCUUAUUUUAGGGUGGGUAAUUUUGUAUUACACUUUUGA (71)	181	38	−31	0.001	75
MR598	35790	35822	GGGUUGUGGGAGAGCCAACUGGAUCUACAUAUGUAGAUCCAGCUUGGGAUACAUCUACAGC (61)	127	48	−27.9	0.001	66
MD653	37793	37835	UGAGUAUUAUCAGCUUUUACCAAAGAUGCUGGAUCUACAAUUAACGUUGGACUAGCACCAGCUGAUAAACUUAAA (75)	127	36	−21.6	0.001	63
MR1469	89360	89395	UUUGGUAUUAUGUUGCACUUUUUAACCUUGAUGAAAUAUCCUUUUUUACGAGAAGAAGAAGUGCUCGAGUAUCA (74)	150	32	−20.2	0.005	63
MD2135	128453	128488	GGUGAUGUAAUCUGUGGAAUAACUCUGUUUAGUUUUUUUAGACAUUUGUUCAACAAAGAUUAAAUCGUCACCGU (74)	141	34	−22.9	0.001	69
MR2250	135129	135164	CGCCAUUAUAAUCAUUUUUAUAGUGGAUAGACUCCAAACUAUCAUUGUUCAAAUGAUUAUAAGAACCGG (69)	148	30	−18.6	0.001	64

^aR indicates that pre-miRNA is derived from the reverse genomic strand, and D indicates the direct genomic strand. The number refers to the pre-miRNA identified from the initial screen of the entire genomic sequence by VMir.

^bFirst nucleotide position of the pre-miRNA in the IIV-9 genome.

^cThe minimum free energy (MFE), P value, and percent confidence (conf) were determined by MiPred.