miRNA: 3'- cUAGGUAUaUCUAG-GGACUAGCaa-CG- -5'
miRNA: 3'- cuAGGUAUAU------------CUA-GGGACUAGCAacg -5'
miRNA: 3'- cUAGGUaUAUCUaGGGACUAG-------CAACG- -5'
miRNA: 3'- -CUAGGUAUAUCUAGGGACuAGCAACG- -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 | |||||||
| 27303 | 5' | -46.6 | NC_005856.1 | + | 56193 | 0.66 | 0.998617 |
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Target: 5'- aAUCUGUGcAGAUCgCCUGAUUGaugGCu -3' miRNA: 3'- cUAGGUAUaUCUAG-GGACUAGCaa-CG- -5' |
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| 27303 | 5' | -46.6 | NC_005856.1 | + | 31773 | 0.67 | 0.998312 |
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Target: 5'- -cUCCGUAUGcuuuccagagguGAUaCCCUGGUCGUa-- -3' miRNA: 3'- cuAGGUAUAU------------CUA-GGGACUAGCAacg -5' |
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| 27303 | 5' | -46.6 | NC_005856.1 | + | 38086 | 0.68 | 0.995739 |
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Target: 5'- uGUCCGaAUGGA-CCUUGAUCaaagccaGUUGCa -3' miRNA: 3'- cUAGGUaUAUCUaGGGACUAG-------CAACG- -5' |
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| 27303 | 5' | -46.6 | NC_005856.1 | + | 62883 | 1.04 | 0.030887 |
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Target: 5'- aGAUCCAUAUAGAUCCCUG-UCGUUGCa -3' miRNA: 3'- -CUAGGUAUAUCUAGGGACuAGCAACG- -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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