miRNA: 3'- cAGAGGUUCAAGAAGgUGcGUAAAGG- -5'
miRNA: 3'- caGAGGUUCaAGAAGGUGCGUAA--AGG- -5'
miRNA: 3'- -CAGAGGUUCAAGAAGGUGCGUAAAGG- -5'
Results 1 - 3 of 3 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 | |||||||
| 604 | 5' | -47.2 | AC_000017.1 | + | 19326 | 0.78 | 0.415161 |
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Target: 5'- aUCUUCAAGUUCUUCaGC-CAUUUCCu -3' miRNA: 3'- cAGAGGUUCAAGAAGgUGcGUAAAGG- -5' |
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| 604 | 5' | -47.2 | AC_000017.1 | + | 4585 | 0.81 | 0.257462 |
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Target: 5'- -cCUCCAAGaUUUUCCAUGCAUUcgUCCa -3' miRNA: 3'- caGAGGUUCaAGAAGGUGCGUAA--AGG- -5' |
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| 604 | 5' | -47.2 | AC_000017.1 | + | 4610 | 1.14 | 0.001993 |
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Target: 5'- cGUCUCCAAGUUCUUCCACGCAUUUCCu -3' miRNA: 3'- -CAGAGGUUCAAGAAGGUGCGUAAAGG- -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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