miRNA: 3'- -GAAcGCUUaCGGGUCC--------------UCCAACGAGU- -5'
miRNA: 3'- gAACGCUua---CGGGUCCucCAaCGAGU- -5'
miRNA: 3'- gaACGCUUa---CGGGUCCU-CCaaCGAGU- -5'
miRNA: 3'- -GAACGCUUACGGGUCCUCCAACGAGU- -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 | |||||||
| 102 | 3' | -53.8 | AC_000006.1 | + | 22879 | 0.71 | 0.346475 |
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Target: 5'- uCUU-CGAA-GCCCAGGuccugcucgauuuuGGGUUGCUCGu -3' miRNA: 3'- -GAAcGCUUaCGGGUCC--------------UCCAACGAGU- -5' |
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| 102 | 3' | -53.8 | AC_000006.1 | + | 11529 | 0.71 | 0.331747 |
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Target: 5'- gUUGCGGuacacGCCCAGGucGUcGCUCAg -3' miRNA: 3'- gAACGCUua---CGGGUCCucCAaCGAGU- -5' |
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| 102 | 3' | -53.8 | AC_000006.1 | + | 7253 | 0.74 | 0.2097 |
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Target: 5'- -aUGCGGAaaggGCCCGGGAcGGagGCUCGg -3' miRNA: 3'- gaACGCUUa---CGGGUCCU-CCaaCGAGU- -5' |
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| 102 | 3' | -53.8 | AC_000006.1 | + | 14305 | 1.09 | 0.000674 |
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Target: 5'- uCUUGCGAAUGCCCAGGAGGUUGCUCAg -3' miRNA: 3'- -GAACGCUUACGGGUCCUCCAACGAGU- -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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