miRNA: 3'- caGACGGuCGAGaGACCGA------CGAGGUa -5'
miRNA: 3'- cAGAC-GGUCGAGa-----GACCGACG--AGGUA- -5'
miRNA: 3'- caGACGG---UCGAGAGa-CCGACGAGGUa -5'
miRNA: 3'- -CAGACGGUCGAGAGACCGACGAGGUA- -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 | |||||||
| 31730 | 5' | -58.8 | NC_006938.1 | + | 17878 | 0.66 | 0.481031 |
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Target: 5'- -cCUGCU-GCUC-CUGGCUcaguccGCUCCAg -3' miRNA: 3'- caGACGGuCGAGaGACCGA------CGAGGUa -5' |
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| 31730 | 5' | -58.8 | NC_006938.1 | + | 49096 | 0.68 | 0.394342 |
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Target: 5'- aUCUGaCCAGCUUgucgcgCUGGCUGUugUUCAUu -3' miRNA: 3'- cAGAC-GGUCGAGa-----GACCGACG--AGGUA- -5' |
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| 31730 | 5' | -58.8 | NC_006938.1 | + | 51859 | 0.71 | 0.223106 |
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Target: 5'- -cCUGCUcgcGGUUCUCcgGGCUGUUCCAg -3' miRNA: 3'- caGACGG---UCGAGAGa-CCGACGAGGUa -5' |
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| 31730 | 5' | -58.8 | NC_006938.1 | + | 47753 | 1.05 | 0.000646 |
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Target: 5'- gGUCUGCCAGCUCUCUGGCUGCUCCAUg -3' miRNA: 3'- -CAGACGGUCGAGAGACCGACGAGGUA- -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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