miRNA: 3'- caauuuGCCUACUCACUGAuaGUagu -5'
miRNA: 3'- caauuUGCCUACUCACUGa--UAg--UAGU- -5'
miRNA: 3'- caauuUGCCUACuCACUGAUaGUAGu -5'
miRNA: 3'- -CAAUUUGCCUACUCACUGAUAGUAGU- -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 | |||||||
| 7143 | 5' | -43.6 | NC_001895.1 | + | 12177 | 0.66 | 0.997744 |
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Target: 5'- -----uCGGAUGAGUGAUUcgCGa-- -3' miRNA: 3'- caauuuGCCUACUCACUGAuaGUagu -5' |
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| 7143 | 5' | -43.6 | NC_001895.1 | + | 22688 | 0.69 | 0.974348 |
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Target: 5'- ----cGCGGGUGAGUGACagcGUaaaAUCAa -3' miRNA: 3'- caauuUGCCUACUCACUGa--UAg--UAGU- -5' |
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| 7143 | 5' | -43.6 | NC_001895.1 | + | 23113 | 0.7 | 0.954568 |
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Target: 5'- ----cGCGGAUG-GUGACUA-CAUCc -3' miRNA: 3'- caauuUGCCUACuCACUGAUaGUAGu -5' |
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| 7143 | 5' | -43.6 | NC_001895.1 | + | 17625 | 1.11 | 0.00785 |
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Target: 5'- aGUUAAACGGAUGAGUGACUAUCAUCAc -3' miRNA: 3'- -CAAUUUGCCUACUCACUGAUAGUAGU- -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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