miRNA: 3'- uaUCG----CCCACAUGU----------CGGUU--------------UGGCACC- -5'
miRNA: 3'- uauCGCCCacaUGUCGGuuUGGCACC- -5'
miRNA: 3'- -UAUCGCcCACAUGUCGGuUUGGca-CC- -5'
miRNA: 3'- -UAUCGCCCACaugUCGGU-UUGGC-ACC- -5'
miRNA: 3'- -UAUCGCCCACAUGUCGGUUUGGCACC- -5'
Results 1 - 5 of 5 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 | |||||||
| 30763 | 3' | -53.4 | NC_006552.1 | + | 22087 | 0.67 | 0.785914 |
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Target: 5'- -cAGCaccaGGGUGUACGcaugacggguGCCGAaugcuucgucggccACCGUGGc -3' miRNA: 3'- uaUCG----CCCACAUGU----------CGGUU--------------UGGCACC- -5' |
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| 30763 | 3' | -53.4 | NC_006552.1 | + | 58350 | 0.7 | 0.639422 |
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Target: 5'- --cGCGGGg--GCAGUUucGCCGUGGc -3' miRNA: 3'- uauCGCCCacaUGUCGGuuUGGCACC- -5' |
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| 30763 | 3' | -53.4 | NC_006552.1 | + | 28363 | 0.7 | 0.606187 |
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Target: 5'- cAUAGCGcGUGUACAGCUuGACCucgGGc -3' miRNA: 3'- -UAUCGCcCACAUGUCGGuUUGGca-CC- -5' |
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| 30763 | 3' | -53.4 | NC_006552.1 | + | 5503 | 0.76 | 0.306608 |
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Target: 5'- cGUAGCGGGUGg--AGCCGuAACCGaUGGu -3' miRNA: 3'- -UAUCGCCCACaugUCGGU-UUGGC-ACC- -5' |
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| 30763 | 3' | -53.4 | NC_006552.1 | + | 29268 | 1.1 | 0.001565 |
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Target: 5'- gAUAGCGGGUGUACAGCCAAACCGUGGg -3' miRNA: 3'- -UAUCGCCCACAUGUCGGUUUGGCACC- -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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