miRNA: 3'- -AGAAGG--UGGCUCC---AGUggu-CUGCUGG- -5'
miRNA: 3'- agaAGGUGGCUCCAGU--------GGU-CUGCUGG- -5'
miRNA: 3'- aGAa-GGU-GGCUCCAGUGGuCUGCuGG- -5'
miRNA: 3'- aGAAGGUGGCu---CCAGUGgu-CUGCUGg -5'
miRNA: 3'- -AGAAGGUGGCUCCAGUGGUCUGCUGG- -5'
Results 41 - 45 of 45 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 | |||||||
| 16371 | 5' | -54.6 | NC_004084.1 | + | 574 | 0.72 | 0.426531 |
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Target: 5'- aUCUUCCcgGCCGAGGaacUCGagauGACGGCCg -3' miRNA: 3'- -AGAAGG--UGGCUCC---AGUggu-CUGCUGG- -5' |
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| 16371 | 5' | -54.6 | NC_004084.1 | + | 50988 | 0.73 | 0.417158 |
|
Target: 5'- --gUUCAUCGAGGUCGgugauaccCCGuGACGACCg -3' miRNA: 3'- agaAGGUGGCUCCAGU--------GGU-CUGCUGG- -5' |
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| 16371 | 5' | -54.6 | NC_004084.1 | + | 35323 | 0.73 | 0.417158 |
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Target: 5'- gCUggCUAuCCGAGGUCGCC-GACGuCCa -3' miRNA: 3'- aGAa-GGU-GGCUCCAGUGGuCUGCuGG- -5' |
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| 16371 | 5' | -54.6 | NC_004084.1 | + | 43311 | 0.76 | 0.264848 |
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Target: 5'- gCUUCCACCGcuacGGUCACaccGACGACg -3' miRNA: 3'- aGAAGGUGGCu---CCAGUGgu-CUGCUGg -5' |
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| 16371 | 5' | -54.6 | NC_004084.1 | + | 2133 | 1.13 | 0.00078 |
|
Target: 5'- cUCUUCCACCGAGGUCACCAGACGACCg -3' miRNA: 3'- -AGAAGGUGGCUCCAGUGGUCUGCUGG- -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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