miRNA: 3'- -UAUCGuuAGAUU--UCACAUUauaCAGG- -5'
miRNA: 3'- uaUCGUUAGAuuuCACAUuau----ACAGG- -5'
miRNA: 3'- uAUCGuuAGauu--UCA-CAUUAUACAGG- -5'
miRNA: 3'- uaUCGUUAgauUUCACAUUAUACAGG- -5'
miRNA: 3'- -UAUCGUUAGAUUUCACAUUAUACAGg -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 | |||||||
| 821 | 5' | -39.8 | NC_000872.1 | + | 3119 | 0.67 | 0.999988 |
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Target: 5'- gAUGGUggUUUGAcaAGUGUAA---GUCCu -3' miRNA: 3'- -UAUCGuuAGAUU--UCACAUUauaCAGG- -5' |
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| 821 | 5' | -39.8 | NC_000872.1 | + | 8111 | 0.7 | 0.999056 |
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Target: 5'- -cGGCAAUCUcuuGUGUAcguugguUGUCCa -3' miRNA: 3'- uaUCGUUAGAuuuCACAUuau----ACAGG- -5' |
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| 821 | 5' | -39.8 | NC_000872.1 | + | 28303 | 0.72 | 0.995749 |
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Target: 5'- uUAGUggUUguguuGGUcGUGGUAUGUCCg -3' miRNA: 3'- uAUCGuuAGauu--UCA-CAUUAUACAGG- -5' |
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| 821 | 5' | -39.8 | NC_000872.1 | + | 17093 | 0.75 | 0.978876 |
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Target: 5'- -aAGCAAUau-GGGUGUAAUGUGUUUu -3' miRNA: 3'- uaUCGUUAgauUUCACAUUAUACAGG- -5' |
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| 821 | 5' | -39.8 | NC_000872.1 | + | 3154 | 1.07 | 0.044083 |
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Target: 5'- gAUAGCAAUCUAAAGUGUAAUAUGUCg -3' miRNA: 3'- -UAUCGUUAGAUUUCACAUUAUACAGg -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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