miRNA: 3'- -UAUCCGUgUUACaCGGCgaacaGGCU- -5'
miRNA: 3'- uauCCGUGUUACACGg---CGAacaGGCu -5'
miRNA: 3'- uAUCCGUGUUACACGG-------CGa---ACaGGcu -5'
miRNA: 3'- -UAUCCGUGUua---CaCGGCGAACAGGCU- -5'
miRNA: 3'- -UAUCCGUGUUACACGGCGAACAGGCU- -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 | |||||||
| 23039 | 5' | -53.2 | NC_005178.1 | + | 36213 | 0.66 | 0.669643 |
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Target: 5'- gGUAGGCGgGAUG-GCCGacgcgCCGAg -3' miRNA: 3'- -UAUCCGUgUUACaCGGCgaacaGGCU- -5' |
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| 23039 | 5' | -53.2 | NC_005178.1 | + | 33520 | 0.66 | 0.669643 |
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Target: 5'- --cGGCACGGUGUGCagguGCUgagCCGu -3' miRNA: 3'- uauCCGUGUUACACGg---CGAacaGGCu -5' |
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| 23039 | 5' | -53.2 | NC_005178.1 | + | 18822 | 0.67 | 0.610155 |
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Target: 5'- uUAGGCACAAUGUGCCuaaucuaGCgucaUG-CCa- -3' miRNA: 3'- uAUCCGUGUUACACGG-------CGa---ACaGGcu -5' |
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| 23039 | 5' | -53.2 | NC_005178.1 | + | 27675 | 0.75 | 0.208431 |
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Target: 5'- cAUGGGCGCGcaacaGcGCCGCUUGUUCGAu -3' miRNA: 3'- -UAUCCGUGUua---CaCGGCGAACAGGCU- -5' |
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| 23039 | 5' | -53.2 | NC_005178.1 | + | 18852 | 1.07 | 0.001025 |
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Target: 5'- aAUAGGCACAAUGUGCCGCUUGUCCGAa -3' miRNA: 3'- -UAUCCGUGUUACACGGCGAACAGGCU- -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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