miRNA: 3'- agaCCgcaCU-CUACCgAGCGAGUGCU- -5'
miRNA: 3'- aGACCGCACUCua-CCGAgCGag-----UGCU- -5'
miRNA: 3'- agACCgCACUC------UACCGAGCGA-GugCU- -5'
miRNA: 3'- -AGACCGCACUCUACCGAGCGAGUGCU- -5'
Results 1 - 4 of 4 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 | |||||||
| 8867 | 5' | -56.1 | NC_002484.1 | + | 14217 | 0.66 | 0.644761 |
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Target: 5'- --aGGaucGAuGAUGGgUCGCUCACGAa -3' miRNA: 3'- agaCCgcaCU-CUACCgAGCGAGUGCU- -5' |
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| 8867 | 5' | -56.1 | NC_002484.1 | + | 33031 | 0.67 | 0.611895 |
|
Target: 5'- aCUGGCGUGAGcgcGGCU-GCgaggugaGCGAa -3' miRNA: 3'- aGACCGCACUCua-CCGAgCGag-----UGCU- -5' |
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| 8867 | 5' | -56.1 | NC_002484.1 | + | 45892 | 0.67 | 0.579183 |
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Target: 5'- -gUGGgGUGAGugcguuAUGGCUUGCUgCugGGc -3' miRNA: 3'- agACCgCACUC------UACCGAGCGA-GugCU- -5' |
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| 8867 | 5' | -56.1 | NC_002484.1 | + | 48237 | 1.1 | 0.000743 |
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Target: 5'- aUCUGGCGUGAGAUGGCUCGCUCACGAa -3' miRNA: 3'- -AGACCGCACUCUACCGAGCGAGUGCU- -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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