miRNA: 3'- -UGUGGCU--------UGaaGGUCCuCCGuaGCGU- -5'
miRNA: 3'- -UGUGGCUUGAAgGucCUCCGua----GCGU- -5'
miRNA: 3'- -UGUGGCUUGaa----GGuCCUCCGUaG-CGU- -5'
Results 41 - 43 of 43 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 | |||||||
| 19117 | 3' | -54.8 | NC_004684.1 | + | 7956 | 0.66 | 0.785982 |
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Target: 5'- cACACCGGugggcaagGCcgCCAGGcGGCcgUGCGc -3' miRNA: 3'- -UGUGGCU--------UGaaGGUCCuCCGuaGCGU- -5' |
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| 19117 | 3' | -54.8 | NC_004684.1 | + | 58787 | 0.66 | 0.785982 |
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Target: 5'- uGCACCGGGCUUgUucGAGGCcaccggCGCGu -3' miRNA: 3'- -UGUGGCUUGAAgGucCUCCGua----GCGU- -5' |
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| 19117 | 3' | -54.8 | NC_004684.1 | + | 65810 | 0.66 | 0.795741 |
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Target: 5'- uGCACCGGGCaggugaCCcGGAGGCAcCgGCGg -3' miRNA: 3'- -UGUGGCUUGaa----GGuCCUCCGUaG-CGU- -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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