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miRNA: 3'- -GUGUAGGAAGGAGACCGUGGACAACG- -5'
miRNA: 3'- -GUGUaGGa----AGGAGA---CCGUGGACAACG- -5'
miRNA: 3'- -GUGuaGGaa-GGAGACCGu-GGaCA--ACG- -5'
miRNA: 3'- -GUGU------AGGAAGGAGACCg-UGGACaaCG- -5'
Results 1 - 4 of 4 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 12753 | 3' | -52.7 | NC_003356.1 | + | 37692 | 1.11 | 0.000845 |
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Target: 5'- cCACAUCCUUCCUCUGGCACCUGUUGCc -3' miRNA: 3'- -GUGUAGGAAGGAGACCGUGGACAACG- -5' |
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| 12753 | 3' | -52.7 | NC_003356.1 | + | 37313 | 0.7 | 0.52766 |
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Target: 5'- cCGCAgCCgauggUCUUCUccgGGUGCCUGUUGUg -3' miRNA: 3'- -GUGUaGGa----AGGAGA---CCGUGGACAACG- -5' |
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| 12753 | 3' | -52.7 | NC_003356.1 | + | 29670 | 0.66 | 0.732107 |
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Target: 5'- uCGCcgCCgccCCUCUGGCuuCCgGUacUGCa -3' miRNA: 3'- -GUGuaGGaa-GGAGACCGu-GGaCA--ACG- -5' |
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| 12753 | 3' | -52.7 | NC_003356.1 | + | 6983 | 0.66 | 0.775245 |
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Target: 5'- cCACGaggcuuUCCUUUCUUUGGgaACCUGcgGCc -3' miRNA: 3'- -GUGU------AGGAAGGAGACCg-UGGACaaCG- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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