miRNA: 3'- -AGGUCAUcaaaCCgACGCACgGACCG- -5'
miRNA: 3'- aGGUCAUCaa------ACCGa---CGcACGGACCG- -5'
miRNA: 3'- -AG-GUCAUCaAACCGa------CGCa--CGGACCg -5'
miRNA: 3'- agGUCauCAAACCGa-CGCACGG--------ACCG- -5'
miRNA: 3'- -AGGUCAUCAAACCGACGCACGGACCG- -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 | |||||||
| 21896 | 3' | -54.7 | NC_004902.1 | + | 10135 | 0.66 | 0.639424 |
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Target: 5'- aUCCGGUGucacGGgUGUGUG-CUGGCa -3' miRNA: 3'- -AGGUCAUcaaaCCgACGCACgGACCG- -5' |
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| 21896 | 3' | -54.7 | NC_004902.1 | + | 21469 | 0.69 | 0.484429 |
|
Target: 5'- aCCAGUGGguccucagUGGCgucaGCaUGUCUGGUa -3' miRNA: 3'- aGGUCAUCaa------ACCGa---CGcACGGACCG- -5' |
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| 21896 | 3' | -54.7 | NC_004902.1 | + | 2687 | 0.69 | 0.453355 |
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Target: 5'- gUCgCAGUAG-UUGGCaucgacgGCGgcgGCCUGGa -3' miRNA: 3'- -AG-GUCAUCaAACCGa------CGCa--CGGACCg -5' |
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| 21896 | 3' | -54.7 | NC_004902.1 | + | 5445 | 0.7 | 0.404097 |
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Target: 5'- -gCGGgcGUUUGGUgaGCGUGCCguccgugaUGGCg -3' miRNA: 3'- agGUCauCAAACCGa-CGCACGG--------ACCG- -5' |
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| 21896 | 3' | -54.7 | NC_004902.1 | + | 35274 | 1.13 | 0.000381 |
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Target: 5'- uUCCAGUAGUUUGGCUGCGUGCCUGGCg -3' miRNA: 3'- -AGGUCAUCAAACCGACGCACGGACCG- -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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