miRNA: 3'- -CGCUAGGCgCUuuacGCUGCCCagca -5'
miRNA: 3'- -CGCuaGGCGCUUUA-CGCuGcCCAGCa -5'
miRNA: 3'- cgcUAGGCGCUUuaCGCUGCCCAGCa -5'
miRNA: 3'- cgCUAGGCGcuUUACGC-UGCCCAGca -5'
miRNA: 3'- -CGCUAGGCGCUUUACGCUGCCCAGCA- -5'
Results 1 - 5 of 5 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 | |||||||
| 30769 | 3' | -54.3 | NC_006552.1 | + | 31451 | 0.67 | 0.795329 |
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Target: 5'- aGCGAUCCGgGAcga-CGACGGGa--- -3' miRNA: 3'- -CGCUAGGCgCUuuacGCUGCCCagca -5' |
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| 30769 | 3' | -54.3 | NC_006552.1 | + | 30339 | 0.68 | 0.725062 |
|
Target: 5'- uGCGugCCGCGAAAUaGCGcCaGGUCGg -3' miRNA: 3'- -CGCuaGGCGCUUUA-CGCuGcCCAGCa -5' |
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| 30769 | 3' | -54.3 | NC_006552.1 | + | 17355 | 0.69 | 0.639593 |
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Target: 5'- --aGUUCGCGGA--GCGACGGGUUGc -3' miRNA: 3'- cgcUAGGCGCUUuaCGCUGCCCAGCa -5' |
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| 30769 | 3' | -54.3 | NC_006552.1 | + | 29696 | 0.72 | 0.522155 |
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Target: 5'- -aGAUCCGCc-GAUGCGuGCGGGUCc- -3' miRNA: 3'- cgCUAGGCGcuUUACGC-UGCCCAGca -5' |
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| 30769 | 3' | -54.3 | NC_006552.1 | + | 27101 | 1.1 | 0.001627 |
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Target: 5'- uGCGAUCCGCGAAAUGCGACGGGUCGUa -3' miRNA: 3'- -CGCUAGGCGCUUUACGCUGCCCAGCA- -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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