miRNA: 3'- augUGGCG-CCGUCau-------AGag-CCGACCU- -5'
miRNA: 3'- aUGUGGCGCCg---UCAUaGAGCCGaCCu -5'
miRNA: 3'- aUG-UGGCgCCGUCaUAGAGCc-GACCU- -5'
miRNA: 3'- aUGUGGCGCCGUCAUA-----------GAGCcGACCU- -5'
miRNA: 3'- -AUGUGGCGCCGUCAUAGAGCCGACCU- -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 | |||||||
| 9446 | 5' | -57.3 | NC_002531.1 | + | 12013 | 0.66 | 0.813152 |
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Target: 5'- --gACCGCaGGCAGguagagccuUCgcaGGCUGGAu -3' miRNA: 3'- augUGGCG-CCGUCau-------AGag-CCGACCU- -5' |
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| 9446 | 5' | -57.3 | NC_002531.1 | + | 122441 | 0.66 | 0.795194 |
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Target: 5'- gGCACUGCGGgacaAGUG-CUCGGC-GGc -3' miRNA: 3'- aUGUGGCGCCg---UCAUaGAGCCGaCCu -5' |
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| 9446 | 5' | -57.3 | NC_002531.1 | + | 76961 | 0.68 | 0.68767 |
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Target: 5'- aGCgACCGgGGCAG-AUCUCGcaCUGGGa -3' miRNA: 3'- aUG-UGGCgCCGUCaUAGAGCc-GACCU- -5' |
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| 9446 | 5' | -57.3 | NC_002531.1 | + | 35031 | 0.72 | 0.437865 |
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Target: 5'- gGCACUGUGGCAGUGUacggagacagcCUCGcCUGGGu -3' miRNA: 3'- aUGUGGCGCCGUCAUA-----------GAGCcGACCU- -5' |
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| 9446 | 5' | -57.3 | NC_002531.1 | + | 96173 | 1.07 | 0.002193 |
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Target: 5'- aUACACCGCGGCAGUAUCUCGGCUGGAu -3' miRNA: 3'- -AUGUGGCGCCGUCAUAGAGCCGACCU- -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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