miRNA: 3'- -AAAGUAGAAGGaguGCGCGUaAAACG- -5'
miRNA: 3'- aAAGUAGAAGg--AGUGCG-CguAAAACG- -5'
miRNA: 3'- aaaguAGAAGGAGUGCGCGuaaa--ACG- -5'
miRNA: 3'- aaAGUAGaAGGAGUGCG--CGuaaaACG- -5'
miRNA: 3'- -AAAGUAGAAGGAGUGCGCGUAAAACG- -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 | |||||||
| 20990 | 3' | -46.4 | NC_004735.1 | + | 125464 | 0.67 | 0.998851 |
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Target: 5'- aUUUCGUUUUCUau-CGCGUAgUUUGCa -3' miRNA: 3'- -AAAGUAGAAGGaguGCGCGUaAAACG- -5' |
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| 20990 | 3' | -46.4 | NC_004735.1 | + | 5711 | 0.68 | 0.997004 |
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Target: 5'- aUUCAUCUUUacaUUAUGCcGguUUUUGCa -3' miRNA: 3'- aAAGUAGAAGg--AGUGCG-CguAAAACG- -5' |
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| 20990 | 3' | -46.4 | NC_004735.1 | + | 39814 | 0.7 | 0.992072 |
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Target: 5'- ----uUCUUCUUUACGCGCuguuugUGCg -3' miRNA: 3'- aaaguAGAAGGAGUGCGCGuaaa--ACG- -5' |
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| 20990 | 3' | -46.4 | NC_004735.1 | + | 79673 | 0.72 | 0.965018 |
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Target: 5'- -cUCAUCaUCCUCACGUauGCuaagUGCg -3' miRNA: 3'- aaAGUAGaAGGAGUGCG--CGuaaaACG- -5' |
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| 20990 | 3' | -46.4 | NC_004735.1 | + | 40003 | 1.11 | 0.014053 |
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Target: 5'- uUUUCAUCUUCCUCACGCGCAUUUUGCu -3' miRNA: 3'- -AAAGUAGAAGGAGUGCGCGUAAAACG- -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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