miRNA: 3'- -GUCGAGaggCUGUAGUGGa--GGCaAGU- -5'
miRNA: 3'- -GUCGAGaGGCUGU-AGUGgaGGCAAGU- -5'
miRNA: 3'- -GUCGAGAGGCUGU-AGUGG------AGGCa--AGU- -5'
miRNA: 3'- -GUCGAGAGGCUGUAGUGGAGGCAAGU- -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 | |||||||
| 27697 | 3' | -54 | NC_005882.1 | + | 21763 | 0.66 | 0.649945 |
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Target: 5'- cCGGCUCg--GGCGUCGCCgggCCGcUCGg -3' miRNA: 3'- -GUCGAGaggCUGUAGUGGa--GGCaAGU- -5' |
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| 27697 | 3' | -54 | NC_005882.1 | + | 17206 | 0.68 | 0.525374 |
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Target: 5'- gCAGCUCgUCGGCAcUCGCg-CCGUUCGc -3' miRNA: 3'- -GUCGAGaGGCUGU-AGUGgaGGCAAGU- -5' |
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| 27697 | 3' | -54 | NC_005882.1 | + | 10688 | 0.74 | 0.253831 |
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Target: 5'- cCAGCUCUUCGACAuUCGCCgcucgaUCCGguaUCAc -3' miRNA: 3'- -GUCGAGAGGCUGU-AGUGG------AGGCa--AGU- -5' |
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| 27697 | 3' | -54 | NC_005882.1 | + | 30798 | 1.08 | 0.000893 |
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Target: 5'- cCAGCUCUCCGACAUCACCUCCGUUCAc -3' miRNA: 3'- -GUCGAGAGGCUGUAGUGGAGGCAAGU- -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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