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miRNA: 3'- agCCUGCCGGa--C-UUAUGGCuaCGCGA- -5'
miRNA: 3'- aGCCUGCCGGacuu------AugGCUACGCGa -5'
miRNA: 3'- aGCCUGCCGGa----CUUaUGGCU--ACGCGa -5'
miRNA: 3'- aGCCUGCCGGaCUuaUGGCUAC-GCGa -5'
miRNA: 3'- -AGCCUGCCGGACUUAUGGCUACGCGA- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 28013 | 3' | -55.6 | NC_005887.1 | + | 39404 | 0.71 | 0.342392 |
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Target: 5'- -aGGAUGGUCgcgGcGGUGCCGcgGCGCUu -3' miRNA: 3'- agCCUGCCGGa--C-UUAUGGCuaCGCGA- -5' |
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| 28013 | 3' | -55.6 | NC_005887.1 | + | 34700 | 0.73 | 0.236968 |
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Target: 5'- gCGGGCGGCCgucgucgcgcUugCGGUGCGCg -3' miRNA: 3'- aGCCUGCCGGacuu------AugGCUACGCGa -5' |
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| 28013 | 3' | -55.6 | NC_005887.1 | + | 6435 | 0.73 | 0.27294 |
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Target: 5'- cCGGACGGCCgcgccGAG-AUCGAagUGCGCg -3' miRNA: 3'- aGCCUGCCGGa----CUUaUGGCU--ACGCGa -5' |
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| 28013 | 3' | -55.6 | NC_005887.1 | + | 35076 | 0.77 | 0.130799 |
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Target: 5'- gCGGGCGGCCgGG--GCCGAUGuCGCg -3' miRNA: 3'- aGCCUGCCGGaCUuaUGGCUAC-GCGa -5' |
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| 28013 | 3' | -55.6 | NC_005887.1 | + | 33216 | 1.08 | 0.000845 |
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Target: 5'- gUCGGACGGCCUGAAUACCGAUGCGCUu -3' miRNA: 3'- -AGCCUGCCGGACUUAUGGCUACGCGA- -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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