miRNA: 3'- -CCCUAa-GUCC--AUAGAGA--------------AGaACCCAU- -5'
miRNA: 3'- cCCUA---------AGUCCAUAGagAAGAACCCAU- -5'
miRNA: 3'- -CCCuaAgUCCAUAGAGaAGAACCCau -5'
miRNA: 3'- -CCCUAAGUCCAUAGAGAAGAACCCAU- -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 | |||||||
| 29330 | 5' | -48.6 | NC_006150.1 | + | 89353 | 0.66 | 0.999647 |
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Target: 5'- cGGGAUgcCAGGagUGUCUCUcuauauugucuuggUCcUGGGUGc -3' miRNA: 3'- -CCCUAa-GUCC--AUAGAGA--------------AGaACCCAU- -5' |
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| 29330 | 5' | -48.6 | NC_006150.1 | + | 63426 | 0.69 | 0.995297 |
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Target: 5'- uGGAUuuucuuuucUCGGGUGUU--UUCUUGGGUGu -3' miRNA: 3'- cCCUA---------AGUCCAUAGagAAGAACCCAU- -5' |
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| 29330 | 5' | -48.6 | NC_006150.1 | + | 53193 | 0.72 | 0.972201 |
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Target: 5'- uGGGggUgGGGUGUUUUgUCUUGGGg- -3' miRNA: 3'- -CCCuaAgUCCAUAGAGaAGAACCCau -5' |
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| 29330 | 5' | -48.6 | NC_006150.1 | + | 155450 | 1.1 | 0.017845 |
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Target: 5'- aGGGAUUCAGGUAUCUCUUCUUGGGUAc -3' miRNA: 3'- -CCCUAAGUCCAUAGAGAAGAACCCAU- -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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