miRNA: 3'- cUGAAGCUCGcCa--AGG---UGUAGUUGau -5'
miRNA: 3'- cUGAAGCu-CGCC--------------AAGGUGUAGUUGau -5'
miRNA: 3'- cUGaaGCUCGCcaa-GGUGUAGUUGau -5'
miRNA: 3'- -CUGaAGCUCGCCaAGGUGUAGUUGAU- -5'
miRNA: 3'- -CUGAAGCUCGCCAAGGUGUAGUUGAU- -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 | |||||||
| 18007 | 5' | -50.2 | NC_004665.1 | + | 29269 | 0.66 | 0.864478 |
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Target: 5'- aGCUUCGAGCcGaugUCCagcACGUCAGCg- -3' miRNA: 3'- cUGAAGCUCGcCa--AGG---UGUAGUUGau -5' |
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| 18007 | 5' | -50.2 | NC_004665.1 | + | 28724 | 0.66 | 0.824432 |
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Target: 5'- aGCUUCGccGUGGcgagccagcacagcUUCCACGUCAGCa- -3' miRNA: 3'- cUGAAGCu-CGCC--------------AAGGUGUAGUUGau -5' |
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| 18007 | 5' | -50.2 | NC_004665.1 | + | 21252 | 0.69 | 0.708247 |
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Target: 5'- uGCggCGAGCGuucgCCACGUCAGCg- -3' miRNA: 3'- cUGaaGCUCGCcaa-GGUGUAGUUGau -5' |
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| 18007 | 5' | -50.2 | NC_004665.1 | + | 11272 | 0.78 | 0.250557 |
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Target: 5'- uGGC-UCGGGCGG-UCUGCGUCAACUGa -3' miRNA: 3'- -CUGaAGCUCGCCaAGGUGUAGUUGAU- -5' |
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| 18007 | 5' | -50.2 | NC_004665.1 | + | 8063 | 1.07 | 0.002354 |
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Target: 5'- cGACUUCGAGCGGUUCCACAUCAACUAc -3' miRNA: 3'- -CUGAAGCUCGCCAAGGUGUAGUUGAU- -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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