miRNA: 3'- -GUCGUcuUACUCAGAcUUCGCGUGgg -5'
miRNA: 3'- gUCGUCUUaCucAGACuUCGCGUGGg -5'
miRNA: 3'- -GUCGUCU----UACUCaGA------CUUCGCGugGG- -5'
miRNA: 3'- -GUCGUCUUACUCAGACUUCGCGUGGG- -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 | |||||||
| 703 | 3' | -52 | AC_000019.1 | + | 18071 | 0.67 | 0.696764 |
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Target: 5'- aCAGCAucGUGGGUCU-AGGCGUGCa- -3' miRNA: 3'- -GUCGUcuUACUCAGAcUUCGCGUGgg -5' |
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| 703 | 3' | -52 | AC_000019.1 | + | 7907 | 0.69 | 0.579995 |
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Target: 5'- aAGUAGAA-GuuUCUGcGGCGCGCCg -3' miRNA: 3'- gUCGUCUUaCucAGACuUCGCGUGGg -5' |
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| 703 | 3' | -52 | AC_000019.1 | + | 11258 | 0.71 | 0.426014 |
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Target: 5'- aCAGCAGAgacaAUGAGgCUuucagaGAGGCGCugCUg -3' miRNA: 3'- -GUCGUCU----UACUCaGA------CUUCGCGugGG- -5' |
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| 703 | 3' | -52 | AC_000019.1 | + | 5303 | 1.12 | 0.000644 |
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Target: 5'- cCAGCAGAAUGAGUCUGAAGCGCACCCu -3' miRNA: 3'- -GUCGUCUUACUCAGACUUCGCGUGGG- -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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