miRNA: 3'- uUGGGAAGUGGUG----UGGgGUUUcaAGU- -5'
miRNA: 3'- -UUGGGAAGuGGUGUGgGGUuUCAAGu -5'
miRNA: 3'- uuGGGaa-GUGGUGUGG-GGUUUCAAGU- -5'
miRNA: 3'- -UUGGGAAGUGGUGUGGGGUUUCAAGU- -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 | |||||||
| 1035 | 3' | -52.1 | NC_000924.1 | + | 49637 | 0.66 | 0.83822 |
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Target: 5'- cACCCUUCGCCACccagACCgCAGAa-UCAu -3' miRNA: 3'- uUGGGAAGUGGUG----UGGgGUUUcaAGU- -5' |
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| 1035 | 3' | -52.1 | NC_000924.1 | + | 42471 | 0.68 | 0.748384 |
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Target: 5'- aAAUCCUUCcCCGCACgCCAcGGUUUu -3' miRNA: 3'- -UUGGGAAGuGGUGUGgGGUuUCAAGu -5' |
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| 1035 | 3' | -52.1 | NC_000924.1 | + | 9540 | 0.76 | 0.322558 |
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Target: 5'- -uCCCaccUACCACACCaCCAAAGUUCAu -3' miRNA: 3'- uuGGGaa-GUGGUGUGG-GGUUUCAAGU- -5' |
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| 1035 | 3' | -52.1 | NC_000924.1 | + | 9567 | 1.06 | 0.002969 |
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Target: 5'- gAACCCUUCACCACACCCCAAAGUUCAc -3' miRNA: 3'- -UUGGGAAGUGGUGUGGGGUUUCAAGU- -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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