miRNA: 3'- caauUUUCCcG-GCUGUAACGU---UGGCG- -5'
miRNA: 3'- caauuuuCCCGG-CUg-----------UAACGUUGGCG- -5'
miRNA: 3'- -CAauUUUCCCGGCUGua-ACGUUg---GCG- -5'
miRNA: 3'- -CAAUUuUCCCGg-----CUGua----ACGUUGGCG- -5'
miRNA: 3'- -CAAUUUUCCCGGCUGUAACGUUGGCG- -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 | |||||||
| 13493 | 3' | -48.2 | NC_003417.1 | + | 8590 | 0.68 | 0.543628 |
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Target: 5'- ---uGAAGGaCaCGACAUUGCAgagGCUGCc -3' miRNA: 3'- caauUUUCCcG-GCUGUAACGU---UGGCG- -5' |
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| 13493 | 3' | -48.2 | NC_003417.1 | + | 5951 | 0.69 | 0.431788 |
|
Target: 5'- ------cGGGCCaGGaacucguuacaaGUUGCAACCGCa -3' miRNA: 3'- caauuuuCCCGG-CUg-----------UAACGUUGGCG- -5' |
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| 13493 | 3' | -48.2 | NC_003417.1 | + | 2928 | 0.71 | 0.358322 |
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Target: 5'- cGUacAGAGGGCCGACuugUGUGGaagaCGCu -3' miRNA: 3'- -CAauUUUCCCGGCUGua-ACGUUg---GCG- -5' |
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| 13493 | 3' | -48.2 | NC_003417.1 | + | 8781 | 0.73 | 0.259068 |
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Target: 5'- gGUUAAuAGGGCgagaaaGAUucacggUGCGACCGCa -3' miRNA: 3'- -CAAUUuUCCCGg-----CUGua----ACGUUGGCG- -5' |
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| 13493 | 3' | -48.2 | NC_003417.1 | + | 4089 | 1.13 | 0.000299 |
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Target: 5'- cGUUAAAAGGGCCGACAUUGCAACCGCu -3' miRNA: 3'- -CAAUUUUCCCGGCUGUAACGUUGGCG- -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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