miRNA: 3'- gUUUUCUGCCAg--UCGCaGAug----CGUUG- -5'
miRNA: 3'- gUUUUCUGccAGUCGCaGAUGCGUUG- -5'
miRNA: 3'- -GUUU---UCUGCCAGUCGCA-GAUGCGUUG- -5'
miRNA: 3'- -GUUUUCUGCCAGUCGCAGAUGCGUUG- -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 | |||||||
| 17233 | 3' | -49.2 | NC_004348.1 | + | 33813 | 0.67 | 0.897287 |
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Target: 5'- aAAAAGGCGGUaaaGGCGgCUcaucaaGCAGCg -3' miRNA: 3'- gUUUUCUGCCAg--UCGCaGAug----CGUUG- -5' |
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| 17233 | 3' | -49.2 | NC_004348.1 | + | 9553 | 0.69 | 0.80824 |
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Target: 5'- uGAAAGACu-UCAGCGaUUAUGCAGCa -3' miRNA: 3'- gUUUUCUGccAGUCGCaGAUGCGUUG- -5' |
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| 17233 | 3' | -49.2 | NC_004348.1 | + | 32511 | 0.93 | 0.034608 |
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Target: 5'- aCAGGaacAGGCGGUCAGCGUaCUGCGCAACg -3' miRNA: 3'- -GUUU---UCUGCCAGUCGCA-GAUGCGUUG- -5' |
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| 17233 | 3' | -49.2 | NC_004348.1 | + | 26771 | 1.12 | 0.001842 |
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Target: 5'- aCAAAAGACGGUCAGCGUCUACGCAACa -3' miRNA: 3'- -GUUUUCUGCCAGUCGCAGAUGCGUUG- -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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