miRNA: 3'- -CUGGCGUAG------GGG-UCCCGUG----CGUAGua -5'
miRNA: 3'- -CUGGCG-UAGGGGUC-CCGUgCGUAGUA- -5'
miRNA: 3'- -CUGGcGUAg---GGGUCCCGUGCGua--GUa -5'
miRNA: 3'- -CUGGCGUAG-GGGUCCcGUGCgUAGUa -5'
miRNA: 3'- -CUGGCGUAGGGGUCCCGUGCGUAGUA- -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 | |||||||
| 22330 | 3' | -59.5 | NC_005045.1 | + | 25447 | 0.67 | 0.321104 |
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Target: 5'- gGGCCGCAUCaaccugCCCaAGGGCACcuugGCAUUc- -3' miRNA: 3'- -CUGGCGUAG------GGG-UCCCGUG----CGUAGua -5' |
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| 22330 | 3' | -59.5 | NC_005045.1 | + | 27201 | 0.69 | 0.255629 |
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Target: 5'- aGGCCGUgGUCCCCGGuGGCG-GCAUUGUa -3' miRNA: 3'- -CUGGCG-UAGGGGUC-CCGUgCGUAGUA- -5' |
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| 22330 | 3' | -59.5 | NC_005045.1 | + | 27393 | 0.69 | 0.249071 |
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Target: 5'- aGGCC-CAUgaaaCCCAGGGCACGCuccgCAg -3' miRNA: 3'- -CUGGcGUAg---GGGUCCCGUGCGua--GUa -5' |
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| 22330 | 3' | -59.5 | NC_005045.1 | + | 24773 | 0.72 | 0.157629 |
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Target: 5'- aGACCGCAUCgCCCAGGuCGCG-GUCGa -3' miRNA: 3'- -CUGGCGUAG-GGGUCCcGUGCgUAGUa -5' |
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| 22330 | 3' | -59.5 | NC_005045.1 | + | 18121 | 1.06 | 0.000365 |
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Target: 5'- cGACCGCAUCCCCAGGGCACGCAUCAUg -3' miRNA: 3'- -CUGGCGUAGGGGUCCCGUGCGUAGUA- -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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