miRNA: 3'- -UGC---UCAUUGGAgUUUcgGUCGGCCUU- -5'
miRNA: 3'- -UGCucAUUGGaGUUUCGGUCGGCcuu -5'
miRNA: 3'- -UGCUCAU--UGGaguUUCGGUCGGccuu -5'
miRNA: 3'- -UGCUCAUUGGAGUUUCGGUCGGCCUU- -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 | |||||||
| 3445 | 3' | -53.7 | NC_001604.1 | + | 22777 | 0.66 | 0.660593 |
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Target: 5'- cACGcuuGGUAGCCUgAGGuuUAGCCGGAAu -3' miRNA: 3'- -UGC---UCAUUGGAgUUUcgGUCGGCCUU- -5' |
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| 3445 | 3' | -53.7 | NC_001604.1 | + | 34373 | 0.67 | 0.591133 |
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Target: 5'- uACGu-UAGCCaCAAAGCCAGCCGa-- -3' miRNA: 3'- -UGCucAUUGGaGUUUCGGUCGGCcuu -5' |
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| 3445 | 3' | -53.7 | NC_001604.1 | + | 5086 | 0.69 | 0.468644 |
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Target: 5'- uGCGAGUAacACCgu-AAGCCAGCCa--- -3' miRNA: 3'- -UGCUCAU--UGGaguUUCGGUCGGccuu -5' |
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| 3445 | 3' | -53.7 | NC_001604.1 | + | 9096 | 1.05 | 0.001353 |
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Target: 5'- cACGAGUAACCUCAAAGCCAGCCGGAAc -3' miRNA: 3'- -UGCUCAUUGGAGUUUCGGUCGGCCUU- -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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