miRNA: 3'- uaGCUGGGGcGCCU----CAgCAGAGGCC-C- -5'
miRNA: 3'- uAgCUGGgGCGCCUCaGCAGAG-GCCC- -5'
miRNA: 3'- uaGCUG-GGGCGCCUCa--GCa----GAGGCCC- -5'
miRNA: 3'- uaGCuGGGGCGCCU--------CAGCAGAGGCCc -5'
Results 41 - 44 of 44 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 | |||||||
| 5429 | 3' | -61 | NC_001798.1 | + | 102338 | 0.72 | 0.379238 |
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Target: 5'- -cCGACCCC-CGGAucccGUgGUCUCCGGcGg -3' miRNA: 3'- uaGCUGGGGcGCCU----CAgCAGAGGCC-C- -5' |
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| 5429 | 3' | -61 | NC_001798.1 | + | 150630 | 0.73 | 0.356202 |
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Target: 5'- cUgGGCCgCGCGGGGcUGUCUCgCGGGg -3' miRNA: 3'- uAgCUGGgGCGCCUCaGCAGAG-GCCC- -5' |
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| 5429 | 3' | -61 | NC_001798.1 | + | 27563 | 0.79 | 0.156029 |
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Target: 5'- -gCGGCgCCCGCGGGGgagCGgccggCUCCGGGg -3' miRNA: 3'- uaGCUG-GGGCGCCUCa--GCa----GAGGCCC- -5' |
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| 5429 | 3' | -61 | NC_001798.1 | + | 4457 | 0.79 | 0.141506 |
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Target: 5'- -aCG-CCCCGCGGAccgcggacGUCGUCUCCGGu -3' miRNA: 3'- uaGCuGGGGCGCCU--------CAGCAGAGGCCc -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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