Table 5.
Heterodimer free energy (ΔG) of top five predicted miRNA along with binding range and alignment of miRNA: Target duplex.
| miRNA | Target Acronyms | miRNA length |
Target length |
CA-miRNA aligned fragment | Alignment | Begomovirus aligned fragment | ΔG (Kcal/ mol) Heterodimer binding |
|---|---|---|---|---|---|---|---|
| CA-miR838 | ToLCNDV_RE_RVA_AC2 | 21 | 20 | UCUUCUUCUUCUUCUUCUUCA | :::::::::::::::. : | CCCAGAAGAAGAAGAAGAGCA | -23.62 |
| ToLCNDV_RE_RVA_AC1 | 21 | 20 | UCUUCUUCUUCUUCUUCUUCA | :::::::::::::::. : | CCCAGAAGAAGAAGAAGAGCA | -23.62 | |
| ChiLCV_KLD_RVA_AC1 | 21 | 20 | UCUUCUUCUUCUUCUUCUUCA | ::. :::::.:..:: :.:: | UGGCGAAGAGGGGGACCAGGA | -16.35 | |
| ChiLCV_KLD_RVA_AC2 | 21 | 20 | UCUUCUUCUUCUUCUUCUUCA | ::. :::::.:..:: :.:: | UGGCGAAGAGGGGGACCAGGA | -16.35 | |
| CLCuMuV_R_RVA_AC1 | 21 | 19 | UCUUCUUCUUCUUCUUCUUCA | ::: ::.::: ::::: : | CCUAGACGAGGAA-AAGAACA | -10.58 | |
| ChiLCB_GKP/IN/21/betaC1 | 21 | 20 | UCUUCUUCUUCUUCUUCUUCA | :: .:::::..:: :.:: | AUAACGAGAAGGGGAUGGAGU | -16.87 | |
| ToLCB_R_RVA/IN/23/betaC1 | 21 | 19 | UCUUCUUCUUCUUCUUCUUCA | ::::: ::::: :.::: | ACAAGAACAAGAA-AGGAAUG | -11.05 | |
| ChLCuB_VAR_RVA/IN/23/betaC1 | 21 | 20 | UCUUCUUCUUCUUCUUCUUCA | :: :: .:::::..:: :. | AUAAUAACGAGAAGGGGAUGG | -13.54 | |
| CA-miR5658 | ToLCNDV_RE_RVA_AV1 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | ::.:.:.:::.:.:::: | AUGCAUCGUGAUCGUUAUCAA | -19.50 |
| ChiLCV_VAR_RVA_AC3 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | :..:..::::.: .:::: | UUUUGCUGUAAUUAGUAUCAA | -10.01 | |
| ChiLCV_GKP_RVA_AC3 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | :..:..::::.: .:::: | UUUUGCUGUAAUUAGUAUCAA | -10.01 | |
| ToLCNDV_RE_RVA_AC1 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | :.:.: ::::: :.:::: | AUUUAUCUAAAUCAGCGUCAU | -11.88 | |
| ToLCNDV_RE_RVA_AC4 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | :.:.: ::::: :.:::: | AUUUAUCUAAAUCAGCGUCAU | -11.88 | |
| ChiLCV_Gkp_AC3 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | :..:..::::.: .::.: | UUUUGCUGUAAUUAGUAUUAA | -7.82 | |
| ChiLINCV_GZB_RVA_AV1 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | ::.:.:::.::.:: : | CUUGUCCGUGAUCGUCGUCCU | -17.93 | |
| ChiLCV_KLD_01_RVA_AV1 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | : :::.:.:.:: . .:::: | GUUCAUCGUGAUAGGUAUCAG | -12.45 | |
| CLCuMuV_R_RVA_AV1 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | : :::.:.:.:: . .:::: | GUUCAUCGUGAUAGGUAUCAA | -12.45 | |
| ChiLCV_Gkp_AC3 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | : .:::::: :.::.: | AUAAAAUAUAAUCUUUAUUAA | -7.57 | |
| ChiLINCV_GZB_RVA_AV1 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | ::. . .:::.:.:::: | AUGCAUAGAGAUCGUUAUCAG | -12.14 | |
| TYLCV_DEO_RVA_AV1 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | :::: :. .:::.:..::: | GAUCUGCGGGAUCGUUGUCAG | -10.25 | |
| ChiLINCV_GZB_RVA_AC3 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | :..:..::::.: .:: : | UUUUGCUGUAAUUAGUAUAAA | -8.49 | |
| ChiLCV_MZP_RVA_AC3 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | :..:..::::.: .:: : | UUUUGCUGUAAUUAGUAUAAA | -5.64 | |
| CLCuB_MZP_RVA/betaC1 | 21 | 20 | AUGAUGAUGAUUAUGGUGAUC | ::: :: :.::: ::::. | UAUCCACACAGUCACCAUCGC | -11.59 | |
| CA-miR5021 | ChiLINCV_GZB_RVA_AC1 | 20 | 19 | UAAGAAGAGGAAGAUCAAAA | ::::: :::::.::::.: : | UUUUGUUCUUCUUCUUUUGA | -18.09 |
| TYLCV_DEO_RVA_AC1 | 20 | 19 | UAAGAAGAGGAAGAUCAAAA | :::: ::::::.::::.: : | UUUUUAUCUUCUUCUUUUAA | -16.47 | |
| ChiLCV_MZP_RVA_AC1 | 20 | 19 | UAAGAAGAGGAAGAUCAAAA | :::: :::::.::::.: : | UUUUCUUCUUCUUCUUUUGA | -17.39 | |
| ChiLCV_VAR_RVA_AC1 | 20 | 19 | UAAGAAGAGGAAGAUCAAAA | :::: :::::.::::.: : | UUUUCUUCUUCUUCUUUUGA | -17.39 | |
| ChiLCV_GKP_RVA_AC1 | 20 | 19 | UAAGAAGAGGAAGAUCAAAA | :::: :::::.::::.: : | UUUUCUUCUUCUUCUUUUGA | -17.39 | |
| ChiLCV_KLD_RVA_AC1 | 20 | 19 | UAAGAAGAGGAAGAUCAAAA | ::: ::::::.::::.: : | UUUCUAUCUUCUUCUUUUGA | -15.58 | |
| CLCuMuV_R_RVA_AC1 | 20 | 17 | UAAGAAGAGGAAGAUCAAAA | :::: :::::.::::::: | UUUU--UCUUCUUCUUCUUU | -17.77 | |
| ChiLCV_Gkp_AC1 | 20 | 19 | UAAGAAGAGGAAGAUCAAAA | ::::: :::::.::::. | UUUUGUUCUUCUUCUUUCGA | -17.24 | |
| CA-miR2673a | ToLCNDV_RE_RVA_AC2 | 22 | 21 | CCUCUUCUUCUUCUUCUUCUUC | :::::::::::::::: | CCCCCAGAAGAAGAAGAAGAGC | -25.05 |
| ToLCNDV_RE_RVA_AC1 | 22 | 21 | CCUCUUCUUCUUCUUCUUCUUC | :::::::::::::::: | CCCCCAGAAGAAGAAGAAGAGC | -25.05 | |
| ChiLCV_KLD_RVA_AC1 | 22 | 21 | CCUCUUCUUCUUCUUCUUCUUC | :. :::::.:..:: :.::: | GGCGAAGAGGGGGACCAGGAGU | -18.45 | |
| ChiLCV_KLD_RVA_AC2 | 22 | 21 | CCUCUUCUUCUUCUUCUUCUUC | :. :::::.:..:: :.::: | GGCGAAGAGGGGGACCAGGAGU | -18.45 | |
| ChiLCAA_GKP_RVA/IN/23 | 22 | 21 | CCUCUUCUUCUUCUUCUUCUUC | :.. :::::::.::: | CCUGUUGGGCAAGAAGAGGAGU | -13.65 | |
| CA-miR2673b | ToLCNDV_RE_RVA_AC2 | 22 | 21 | CCUCUUCUUCUUCUUCUUCUUC | :::::::::::::::: | CCCCCAGAAGAAGAAGAAGAGC | -25.05 |
| ToLCNDV_RE_RVA_AC1 | 22 | 21 | CCUCUUCUUCUUCUUCUUCUUC | :::::::::::::::: | CCCCCAGAAGAAGAAGAAGAGC | -25.05 | |
| ChiLCV_KLD_RVA_AC1 | 22 | 21 | CCUCUUCUUCUUCUUCUUCUUC | :. :::::.:..:: :.::: | GGCGAAGAGGGGGACCAGGAGU | -18.45 | |
| ChiLCV_KLD_RVA_AC2 | 22 | 21 | CCUCUUCUUCUUCUUCUUCUUC | :. :::::.:..:: :.::: | GGCGAAGAGGGGGACCAGGAGU | -18.45 | |
| ChiLCAA_GKP_RVA/IN/23 | 22 | 21 | CCUCUUCUUCUUCUUCUUCUUC | :.. :::::::.::: | CCUGUUGGGCAAGAAGAGGAGU | -13.65 |