miRNA: 3'- gUCCCCu--------ACUCAGCau---------CUGCCACCgC- -5'
miRNA: 3'- guCC-CCUa---CUCaGCauCUGCCACCGc -5'
miRNA: 3'- -GUCCC-CuACU----------CAGCAUCUGCCA------CCGC- -5'
miRNA: 3'- -GUCCCCUACUCAGCAUCUGCCACCGC- -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 | |||||||
| 1352 | 3' | -56.6 | NC_001335.1 | + | 18770 | 0.69 | 0.480787 |
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Target: 5'- aAGGGGuuuaccucuUGGGUCGguguccaucuuGACGGUGGgGg -3' miRNA: 3'- gUCCCCu--------ACUCAGCau---------CUGCCACCgC- -5' |
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| 1352 | 3' | -56.6 | NC_001335.1 | + | 1258 | 0.69 | 0.462816 |
|
Target: 5'- -cGGcGGAagugGAGcCGgcGGCGGUGGCa -3' miRNA: 3'- guCC-CCUa---CUCaGCauCUGCCACCGc -5' |
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| 1352 | 3' | -56.6 | NC_001335.1 | + | 11937 | 0.7 | 0.424199 |
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Target: 5'- aCAGGGcGuUGAcggcgaccgcGUCGUAGACGGUgaggucGGCGu -3' miRNA: 3'- -GUCCC-CuACU----------CAGCAUCUGCCA------CCGC- -5' |
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| 1352 | 3' | -56.6 | NC_001335.1 | + | 13496 | 1.08 | 0.000919 |
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Target: 5'- gCAGGGGAUGAGUCGUAGACGGUGGCGu -3' miRNA: 3'- -GUCCCCUACUCAGCAUCUGCCACCGC- -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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