miRNA: 3'- cUGUCuUAGa-ACGCUAGCUCGCaaag -5'
miRNA: 3'- cUGUCUUAGa-----ACGCU----------AGCUCGCaa---AG- -5'
miRNA: 3'- -CUGU-CUUAGaaCGCuaGCUCGCAAAG- -5'
miRNA: 3'- cUGU-CUUa--GAACGCUAGCUCGCaaag -5'
miRNA: 3'- -CUGUCUUAGAACGCUAGCUCGCAAAG- -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 | |||||||
| 17099 | 5' | -47.5 | NC_004333.2 | + | 17568 | 0.68 | 0.947917 |
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Target: 5'- aGCAG-GUCggUGCGGUCGAGUGc--- -3' miRNA: 3'- cUGUCuUAGa-ACGCUAGCUCGCaaag -5' |
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| 17099 | 5' | -47.5 | NC_004333.2 | + | 19453 | 0.68 | 0.937401 |
|
Target: 5'- aGCAGAAUCgucaacUGCGAguugaacugcUCGAGCGcgaugUCg -3' miRNA: 3'- cUGUCUUAGa-----ACGCU----------AGCUCGCaa---AG- -5' |
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| 17099 | 5' | -47.5 | NC_004333.2 | + | 22007 | 0.69 | 0.898239 |
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Target: 5'- cGGCGcGAAUCa-GCGcgCGGGCGUUUUc -3' miRNA: 3'- -CUGU-CUUAGaaCGCuaGCUCGCAAAG- -5' |
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| 17099 | 5' | -47.5 | NC_004333.2 | + | 41445 | 0.72 | 0.777959 |
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Target: 5'- cACAuGAAgugCUUGCGGUCGGGCGc--- -3' miRNA: 3'- cUGU-CUUa--GAACGCUAGCUCGCaaag -5' |
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| 17099 | 5' | -47.5 | NC_004333.2 | + | 45854 | 1.12 | 0.003247 |
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Target: 5'- cGACAGAAUCUUGCGAUCGAGCGUUUCg -3' miRNA: 3'- -CUGUCUUAGAACGCUAGCUCGCAAAG- -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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