miRNA: 3'- -GUGGGUGcUGCGAC----CGC--CACAACaau -5'
miRNA: 3'- -GUGGGugCUGC-GACcgCCACAACAAu -5'
miRNA: 3'- -GUGGGUG-CugCGACCGCCACAAC-AAU- -5'
miRNA: 3'- -GUGGGUGCUGCGACCGCCACAACAAU- -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 | |||||||
| 21854 | 3' | -55.6 | NC_004902.1 | + | 34004 | 0.66 | 0.62698 |
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Target: 5'- uCACCCGCuGCGCUGaucuGCGacGUGUUGa-- -3' miRNA: 3'- -GUGGGUGcUGCGAC----CGC--CACAACaau -5' |
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| 21854 | 3' | -55.6 | NC_004902.1 | + | 1122 | 0.67 | 0.570991 |
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Target: 5'- aCGCCUugGAUGcCUGa-GGUGUUGUUc -3' miRNA: 3'- -GUGGGugCUGC-GACcgCCACAACAAu -5' |
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| 21854 | 3' | -55.6 | NC_004902.1 | + | 37888 | 0.72 | 0.2943 |
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Target: 5'- uCAUCUACuGugGUUGGUGGUGUUGcUUGg -3' miRNA: 3'- -GUGGGUG-CugCGACCGCCACAAC-AAU- -5' |
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| 21854 | 3' | -55.6 | NC_004902.1 | + | 8390 | 1.07 | 0.000951 |
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Target: 5'- gCACCCACGACGCUGGCGGUGUUGUUAa -3' miRNA: 3'- -GUGGGUGCUGCGACCGCCACAACAAU- -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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