miRNA: 3'- -UCGCGG---------------UCGUUgu-ACCCUAGU- -5'
miRNA: 3'- -UCGCGG--UCGUuGuACCCUAGU- -5'
miRNA: 3'- -UCGC-GGUCGU---UGUACCCuaGu -5'
Results 21 - 23 of 23 are showing below:
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| Acc. No. | Name | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| MIMAT0002187 | kshv-miR-K12-7 | -47.3 | NC_003409.1 | + | 37471 | 0.66 | 0.99529 |
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Target: 5'- uAGCGCUcugcccgggcaccuuGGCGGauuUGGGAUCAa -3' miRNA: 3'- -UCGCGG---------------UCGUUgu-ACCCUAGU- -5' |
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| MIMAT0002187 | kshv-miR-K12-7 | -47.3 | NC_003409.1 | - | 105225 | 0.66 | 0.996435 |
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Target: 5'- cAGCGCUguGGCG-CcUGGGGUCGc -3' miRNA: 3'- -UCGCGG--UCGUuGuACCCUAGU- -5' |
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| MIMAT0002187 | kshv-miR-K12-7 | -47.3 | NC_003409.1 | - | 50062 | 0.66 | 0.996435 |
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Target: 5'- aGGCGuCCGGUAcugGCGUGGGcgCc -3' miRNA: 3'- -UCGC-GGUCGU---UGUACCCuaGu -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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