miRNA: 3'- gAUGAcCUUUGGC-----------AAAGGCCGUaCCG- -5'
miRNA: 3'- gaUGAC-CUUUGGCaaa-------GGCCGUACCg -5'
miRNA: 3'- gaUGaCCUUUGGCaaa---GGCCGUACCg -5'
Results 21 - 23 of 23 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 | |||||||
| 21748 | 5' | -50.8 | NC_004813.1 | + | 16506 | 0.67 | 0.8758 |
|
Target: 5'- aUACU-GAGGCCGgaagcggggauUUUCCGGCG-GGUa -3' miRNA: 3'- gAUGAcCUUUGGC-----------AAAGGCCGUaCCG- -5' |
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| 21748 | 5' | -50.8 | NC_004813.1 | + | 6118 | 0.67 | 0.889688 |
|
Target: 5'- -gGCUGgGAAGCUGgcugaacgugUCGGCAUGGa -3' miRNA: 3'- gaUGAC-CUUUGGCaaa-------GGCCGUACCg -5' |
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| 21748 | 5' | -50.8 | NC_004813.1 | + | 703 | 0.69 | 0.814052 |
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Target: 5'- -cACgGGGAGCUGguaucgCUGGCAUGGg -3' miRNA: 3'- gaUGaCCUUUGGCaaa---GGCCGUACCg -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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