miRNA: 3'- aaCUGCAACuGA---GCA-GGCUGGAGCGA- -5'
miRNA: 3'- aaCUGCaac-UGAGCaGGCUGGAGCGa -5'
miRNA: 3'- aaCUGCAACUGA--------------GCA-GGCUGGAGCgA- -5'
miRNA: 3'- aaCUGCAa-CUGAGCAG--------GCUGGAGCGa -5'
miRNA: 3'- -AACUGCAACUGAGCAGGCUGGAGCGA- -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 | |||||||
| 12608 | 5' | -54.7 | NC_003345.1 | + | 57736 | 0.66 | 0.827028 |
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Target: 5'- -gGGUGUUG-CUgagCGUcCCGACCUCGCUu -3' miRNA: 3'- aaCUGCAACuGA---GCA-GGCUGGAGCGA- -5' |
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| 12608 | 5' | -54.7 | NC_003345.1 | + | 26838 | 0.66 | 0.799383 |
|
Target: 5'- -aGACGagacGCUUG-CCGACCUCGUg -3' miRNA: 3'- aaCUGCaac-UGAGCaGGCUGGAGCGa -5' |
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| 12608 | 5' | -54.7 | NC_003345.1 | + | 32191 | 0.69 | 0.640844 |
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Target: 5'- -cGACGUUGACUacaccgaccggcucCGUaUCGACCUCGgUa -3' miRNA: 3'- aaCUGCAACUGA--------------GCA-GGCUGGAGCgA- -5' |
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| 12608 | 5' | -54.7 | NC_003345.1 | + | 63651 | 0.75 | 0.34772 |
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Target: 5'- -cGACGUggGACUCGUCggacaggcUGACCUCGUg -3' miRNA: 3'- aaCUGCAa-CUGAGCAG--------GCUGGAGCGa -5' |
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| 12608 | 5' | -54.7 | NC_003345.1 | + | 24391 | 1.05 | 0.00332 |
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Target: 5'- gUUGACGUUGACUCGUCCGACCUCGCUc -3' miRNA: 3'- -AACUGCAACUGAGCAGGCUGGAGCGA- -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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