miRNA: 3'- -CCUGCGAAGUa-------GUCG--UCGUGGaa----CAG- -5'
miRNA: 3'- -CCugCGaa----------GUAGUCGUCGUGGaACAG- -5'
miRNA: 3'- -CCUGCGAAGUAGUCGUCGUGGAACAG- -5'
Results 21 - 23 of 23 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 | |||||||
| 24265 | 3' | -51.9 | NC_005263.2 | + | 31240 | 0.74 | 0.380956 |
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Target: 5'- gGGGCGCUUCGguuccgcgCGGCgcGGCGCCgggcagGUCg -3' miRNA: 3'- -CCUGCGAAGUa-------GUCG--UCGUGGaa----CAG- -5' |
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| 24265 | 3' | -51.9 | NC_005263.2 | + | 39121 | 0.76 | 0.30067 |
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Target: 5'- uGGugGCcggccagaucaaCGUCGGCGGCACCgUGUCg -3' miRNA: 3'- -CCugCGaa----------GUAGUCGUCGUGGaACAG- -5' |
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| 24265 | 3' | -51.9 | NC_005263.2 | + | 12438 | 1.14 | 0.000798 |
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Target: 5'- cGGACGCUUCAUCAGCAGCACCUUGUCg -3' miRNA: 3'- -CCUGCGAAGUAGUCGUCGUGGAACAG- -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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