miRNA: 3'- ggUGGGCGUUAGGGcuuc-GGAAGUCC- -5'
miRNA: 3'- gGUGGGCGUuaGGGCUuCGga-AGUcc -5'
miRNA: 3'- ggUGGGCG-UUAGG---GCUUCGGAAGu-CC- -5'
miRNA: 3'- -GGUGGGCGUUAGGGCUUCGGAAGUCC- -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 | |||||||
| 2515 | 5' | -54.5 | NC_001454.1 | + | 10575 | 0.67 | 0.570963 |
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Target: 5'- -aACCUGCGAUCCCucaucUCUUCGGGc -3' miRNA: 3'- ggUGGGCGUUAGGGcuuc-GGAAGUCC- -5' |
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| 2515 | 5' | -54.5 | NC_001454.1 | + | 15303 | 0.68 | 0.494461 |
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Target: 5'- gCACCCGCAcgCCCGAcGCaucUCGc- -3' miRNA: 3'- gGUGGGCGUuaGGGCUuCGga-AGUcc -5' |
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| 2515 | 5' | -54.5 | NC_001454.1 | + | 7969 | 0.72 | 0.324215 |
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Target: 5'- -uGCCCGCuGAUCUgaaCGAGGCCUUCcuGGa -3' miRNA: 3'- ggUGGGCG-UUAGG---GCUUCGGAAGu-CC- -5' |
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| 2515 | 5' | -54.5 | NC_001454.1 | + | 11544 | 1.12 | 0.000448 |
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Target: 5'- aCCACCCGCAAUCCCGAAGCCUUCAGGc -3' miRNA: 3'- -GGUGGGCGUUAGGGCUUCGGAAGUCC- -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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