Table 1. Putative microRNAs predicted to target pol or env-nef region.

Site	Target Sequence	Name of miRNA	Free energy	Relative amount §	Primary T cells
a	ATCTGCGGACATAAAGCTATAGGTACAGTATTAGTAGGACCTACACCTGT	hsa-miR-200c	−18.7	43.5	+
a	ATCTGCGGACATAAAGCTATAGGTACAGTATTAGTAGGACCTACACCTGT	hsa-miR-636	−20.9	1.7	+
b	TAATTGGAAGAAATCTGTTGACTCAGATTGGCTGCACTTTAAATTTTCCC	hsa-miR-17	−22.4	12617.5	+
b	TAATTGGAAGAAATCTGTTGACTCAGATTGGCTGCACTTTAAATTTTCCC	hsa-miR-20b	−21.6	1016.6	+
b	TAATTGGAAGAAATCTGTTGACTCAGATTGGCTGCACTTTAAATTTTCCC	hsa-miR-93	−22.1	1477.8	+
b	TAATTGGAAGAAATCTGTTGACTCAGATTGGCTGCACTTTAAATTTTCCC	hsa-miR-106a	−22.4	17542.1	+
b	TAATTGGAAGAAATCTGTTGACTCAGATTGGCTGCACTTTAAATTTTCCC	hsa-miR-106b	−23.5	435.9	+
c	CTATTCGCCACATACCTAGAAGAATAAGACAGGGCTTGGAAAGGATTTTG	hsa-miR-362-5p	−22.9	21.1	+
c	CTATTCGCCACATACCTAGAAGAATAAGACAGGGCTTGGAAAGGATTTTG	hsa-miR-378*	−31.2	5.5	+
c	CTATTCGCCACATACCTAGAAGAATAAGACAGGGCTTGGAAAGGATTTTG	hsa-miR-500	−20	17.1	+
c	CTATTCGCCACATACCTAGAAGAATAAGACAGGGCTTGGAAAGGATTTTG	hsa-miR-501-5p	−23.1	4.8
D	GAAAGGATTTTGCTATAAGATGGGTGGCAAGTGGTCAAAAAGTAGTGTGA	hsa-miR-193b	−20.8	69.2	+
D	GAAAGGATTTTGCTATAAGATGGGTGGCAAGTGGTCAAAAAGTAGTGTGA	hsa-miR-221	−20.6	83.3	+
D	GAAAGGATTTTGCTATAAGATGGGTGGCAAGTGGTCAAAAAGTAGTGTGA	hsa-miR-328	−23.2	17	+
D	GAAAGGATTTTGCTATAAGATGGGTGGCAAGTGGTCAAAAAGTAGTGTGA	hsa-miR-500	−26	17.1	+
D	GAAAGGATTTTGCTATAAGATGGGTGGCAAGTGGTCAAAAAGTAGTGTGA	hsa-miR-502-5p	−21.2	1.34	+
D	GAAAGGATTTTGCTATAAGATGGGTGGCAAGTGGTCAAAAAGTAGTGTGA	hsa-miR-660	−22.8	86.2
E	AGCACAAGAGGAGGAAGAGGTGGGTTTTCCAGTCACACCTCAGGTACCTT	hsa-miR-7	−20.4	13.2	+
E	AGCACAAGAGGAGGAAGAGGTGGGTTTTCCAGTCACACCTCAGGTACCTT	hsa-miR-185	−21.8	19.2	+
E	AGCACAAGAGGAGGAAGAGGTGGGTTTTCCAGTCACACCTCAGGTACCTT	hsa-miR-491-5p	−23.9	6.8	+
E	AGCACAAGAGGAGGAAGAGGTGGGTTTTCCAGTCACACCTCAGGTACCTT	hsa-miR-550	−30	1.2

^§Fold value for RUN6B.

The microRNA binding site is underlined. The miRNAs suggested to be present in primary T cells or HIV-1-infected primary T cells are shown as “+” in the “Primary T cells” column [18], [19].