miRNA: 3'- -CUGGauGCC-GUUAGGUCAGUUAcuac -5'
miRNA: 3'- cuGGAUGCC-GUUAGGUCa--GUuaCUAC- -5'
miRNA: 3'- cUGGAUGCC--GUUAGGu-CAGUua--CUAC- -5'
miRNA: 3'- -CUGGAUG-CCGUUA--GGUCa-GUU----ACUAC- -5'
miRNA: 3'- -CUGGAUGCCGUUAGGUCAGUUACUAC- -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 | |||||||
| 27346 | 3' | -49.2 | NC_005857.1 | + | 16910 | 0.66 | 0.940166 |
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Target: 5'- aGGCC--CGGaCGAUCCAGUCAGUc--- -3' miRNA: 3'- -CUGGauGCC-GUUAGGUCAGUUAcuac -5' |
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| 27346 | 3' | -49.2 | NC_005857.1 | + | 21520 | 0.66 | 0.934677 |
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Target: 5'- -uCCUGCGGuCAGUCUGGcggCAcgGGUGc -3' miRNA: 3'- cuGGAUGCC-GUUAGGUCa--GUuaCUAC- -5' |
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| 27346 | 3' | -49.2 | NC_005857.1 | + | 24255 | 0.67 | 0.928878 |
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Target: 5'- uGCCUGCGGacCAGUCCccGUCGucugGGUGg -3' miRNA: 3'- cUGGAUGCC--GUUAGGu-CAGUua--CUAC- -5' |
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| 27346 | 3' | -49.2 | NC_005857.1 | + | 9357 | 0.69 | 0.83597 |
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Target: 5'- cGACCUGCaGGCGAUcaCCGGcgCGAccgcUGAUGa -3' miRNA: 3'- -CUGGAUG-CCGUUA--GGUCa-GUU----ACUAC- -5' |
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| 27346 | 3' | -49.2 | NC_005857.1 | + | 18878 | 1.1 | 0.003009 |
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Target: 5'- cGACCUACGGCAAUCCAGUCAAUGAUGa -3' miRNA: 3'- -CUGGAUGCCGUUAGGUCAGUUACUAC- -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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