miRNA: 3'- uaAGGGAGAAAGuaau----GUUGGACGGg -5'
miRNA: 3'- uaaGGGAGAAAGUAa-----UGUugGACGGG- -5'
miRNA: 3'- uAAGGGAGAA----AGUaa--------UGUUGGACGGg -5'
miRNA: 3'- -UAAGGGAGAAAGUAAUGUUGGACGGG- -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# |
P value
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| Predicted miRNA align pattern | |||||||
| 7536 | 3' | -48 | NC_001946.1 | + | 4256 | 0.67 | 0.496574 |
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Target: 5'- -aUUCCUCUUUCucuaaaguUAAUCUGCCa -3' miRNA: 3'- uaAGGGAGAAAGuaau----GUUGGACGGg -5' |
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| 7536 | 3' | -48 | NC_001946.1 | + | 4471 | 0.67 | 0.45914 |
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Target: 5'- --aUCUUCUUUCAUcaacgaGCAugCUGUCCu -3' miRNA: 3'- uaaGGGAGAAAGUAa-----UGUugGACGGG- -5' |
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| 7536 | 3' | -48 | NC_001946.1 | + | 1879 | 0.69 | 0.346491 |
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Target: 5'- uUUCCCUCUUauccUCAggaugcucugAUAGCCUGUCa -3' miRNA: 3'- uAAGGGAGAA----AGUaa--------UGUUGGACGGg -5' |
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| 7536 | 3' | -48 | NC_001946.1 | + | 220 | 1.12 | 0.000217 |
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Target: 5'- cAUUCCCUCUUUCAUUACAACCUGCCCg -3' miRNA: 3'- -UAAGGGAGAAAGUAAUGUUGGACGGG- -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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