miRNA: 3'- gGUAACUCAGAC-UGG-GAUCUACgGUa -5'
miRNA: 3'- -GGUAACUCAG--------ACUGGgaUCUACGGUA- -5'
miRNA: 3'- gGUAACUCAGACUGG-GAucuaCGGUA- -5'
miRNA: 3'- -GGUAACUCAGACUgGGAUCUACGGUA- -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 | |||||||
| 12051 | 3' | -51.2 | NC_003298.1 | + | 20092 | 0.68 | 0.689674 |
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Target: 5'- aCGUUGAGUUUGaACCgCUGGGUGaCAc -3' miRNA: 3'- gGUAACUCAGAC-UGG-GAUCUACgGUa -5' |
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| 12051 | 3' | -51.2 | NC_003298.1 | + | 1038 | 0.69 | 0.631155 |
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Target: 5'- uCCGUUGAGUCaaccgauuUGACC--GGGUGCUAUc -3' miRNA: 3'- -GGUAACUCAG--------ACUGGgaUCUACGGUA- -5' |
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| 12051 | 3' | -51.2 | NC_003298.1 | + | 22727 | 0.69 | 0.607667 |
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Target: 5'- aUAUUGGGUCUGACCgCUuguaGCCAUu -3' miRNA: 3'- gGUAACUCAGACUGG-GAucuaCGGUA- -5' |
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| 12051 | 3' | -51.2 | NC_003298.1 | + | 35228 | 0.93 | 0.018218 |
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Target: 5'- uCCAUUGAGUCUGA-CCUAGAUGCCAUc -3' miRNA: 3'- -GGUAACUCAGACUgGGAUCUACGGUA- -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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