miRNA: 3'- -UUCCUGGCGGUAUUACGGCAACUCCA- -5'
miRNA: 3'- uuCCUGGCGGUa--UUACG-GCA-ACUCCa -5'
miRNA: 3'- uUCCUGGCGGUAuUACGGCaaCuCCa -5'
miRNA: 3'- uuCCUG---GCGGUAUUACGGCaa-----CUCCa -5'
miRNA: 3'- uUCC-UGGCGGUAuuACGGCa------ACUCCA- -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 |
| Predicted miRNA align pattern | |||||||
| 2383 | 3' | -53.9 | NC_001416.1 | + | 16664 | 1.06 | 0.001578 |
|
Target: 5'- gAAGGACCGCCAUAAUGCCGUUGAGGUg -3' miRNA: 3'- -UUCCUGGCGGUAUUACGGCAACUCCA- -5' |
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| 2383 | 3' | -53.9 | NC_001416.1 | + | 1920 | 0.68 | 0.586832 |
|
Target: 5'- -uGGACCGCUAcgaAAUGCgCGUaUGGGGa -3' miRNA: 3'- uuCCUGGCGGUa--UUACG-GCA-ACUCCa -5' |
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| 2383 | 3' | -53.9 | NC_001416.1 | + | 24300 | 0.67 | 0.666538 |
|
Target: 5'- uAGGACUGCUAU-GUGCCGgaGcGGa -3' miRNA: 3'- uUCCUGGCGGUAuUACGGCaaCuCCa -5' |
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| 2383 | 3' | -53.9 | NC_001416.1 | + | 44155 | 0.66 | 0.733625 |
|
Target: 5'- -cGGAUuauUGCCGUAGUGCCGcgacgccGGGGg -3' miRNA: 3'- uuCCUG---GCGGUAUUACGGCaa-----CUCCa -5' |
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| 2383 | 3' | -53.9 | NC_001416.1 | + | 8083 | 0.68 | 0.564273 |
|
Target: 5'- cAGGcACCGCCGUuuUGCUGauacggcUGAGGUu -3' miRNA: 3'- uUCC-UGGCGGUAuuACGGCa------ACUCCA- -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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