miRNA: 3'- -CGGCAaaGGUGGCGGCggCAAucuug -5'
miRNA: 3'- -CGGcaaAGGUGGCGG---CGGCaaUCUUG- -5'
miRNA: 3'- -CGGCAAa------GGUGGCGGCGGCAAUcuug -5'
miRNA: 3'- -CGGCAAAGGUGGCGGCGGCAAUCUUG- -5'
Results 21 - 24 of 24 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 | |||||||
| 12637 | 5' | -53.8 | NC_003345.1 | + | 2699 | 0.72 | 0.549333 |
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Target: 5'- cGCCGUcgCUACCGCCGuuGUUc---- -3' miRNA: 3'- -CGGCAaaGGUGGCGGCggCAAucuug -5' |
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| 12637 | 5' | -53.8 | NC_003345.1 | + | 50023 | 0.73 | 0.517958 |
|
Target: 5'- cGCCaccUCCACCGCCggaGCCGccGGAGCc -3' miRNA: 3'- -CGGcaaAGGUGGCGG---CGGCaaUCUUG- -5' |
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| 12637 | 5' | -53.8 | NC_003345.1 | + | 21086 | 0.73 | 0.497441 |
|
Target: 5'- cGCUGUUguuguugCUACCGCCGCUGUUGu--- -3' miRNA: 3'- -CGGCAAa------GGUGGCGGCGGCAAUcuug -5' |
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| 12637 | 5' | -53.8 | NC_003345.1 | + | 50692 | 1.11 | 0.001608 |
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Target: 5'- cGCCGUUUCCACCGCCGCCGUUAGAACc -3' miRNA: 3'- -CGGCAAAGGUGGCGGCGGCAAUCUUG- -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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