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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 | |||||||
| 1240 | 3' | -51.2 | NC_001271.1 | + | 9915 | 0.66 | 0.813998 |
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Target: 5'- cGGUGACggcacgacuaccUUCAAGUUCAaauGCUAUGCg -3' miRNA: 3'- -UCGCUG------------GAGUUCAGGUcuuCGAUACG- -5' |
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| 1240 | 3' | -51.2 | NC_001271.1 | + | 25132 | 0.68 | 0.682883 |
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Target: 5'- gAGCGACUcgaAAGgauaCCAGAGGCUGucagaacgaacUGCg -3' miRNA: 3'- -UCGCUGGag-UUCa---GGUCUUCGAU-----------ACG- -5' |
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| 1240 | 3' | -51.2 | NC_001271.1 | + | 34579 | 0.7 | 0.60121 |
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Target: 5'- gAGUGACCUUGAGUCUucuAGAAcCUAcGCg -3' miRNA: 3'- -UCGCUGGAGUUCAGG---UCUUcGAUaCG- -5' |
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| 1240 | 3' | -51.2 | NC_001271.1 | + | 22621 | 0.71 | 0.554933 |
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Target: 5'- cGGCGGUCUgc-GUCCAGAAGCUGcugGCg -3' miRNA: 3'- -UCGCUGGAguuCAGGUCUUCGAUa--CG- -5' |
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| 1240 | 3' | -51.2 | NC_001271.1 | + | 20382 | 1.13 | 0.00079 |
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Target: 5'- uAGCGACCUCAAGUCCAGAAGCUAUGCa -3' miRNA: 3'- -UCGCUGGAGUUCAGGUCUUCGAUACG- -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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