miRNA: 3'- aCUGGG--------------AGCAUUGuaC-CUGCGUCuCG- -5'
miRNA: 3'- aCUGGGagCAUUGUaCCuGCguCUCG- -5'
miRNA: 3'- aCUGGG--------------AGCau--UGUAC-CUGCGUCUCG- -5'
miRNA: 3'- aCUGGGA-GCauuGUACCuGcGUCUCG- -5'
miRNA: 3'- -ACUGGGAGCAUUGUACCUGCGUCUCG- -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 | |||||||
| 28220 | 5' | -52.6 | NC_005891.1 | + | 24170 | 0.66 | 0.783386 |
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Target: 5'- cGACCCaaccaauaauacaaUCGUAGCccGcGACGUGGcGCa -3' miRNA: 3'- aCUGGG--------------AGCAUUGuaC-CUGCGUCuCG- -5' |
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| 28220 | 5' | -52.6 | NC_005891.1 | + | 7293 | 0.66 | 0.765584 |
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Target: 5'- aGACCC--GUAAUAaGG-CGguGAGCa -3' miRNA: 3'- aCUGGGagCAUUGUaCCuGCguCUCG- -5' |
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| 28220 | 5' | -52.6 | NC_005891.1 | + | 1014 | 0.66 | 0.740825 |
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Target: 5'- cGAUCUuuauuuucucacggUCGgucuGCAUGcGAUGCAGAGUa -3' miRNA: 3'- aCUGGG--------------AGCau--UGUAC-CUGCGUCUCG- -5' |
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| 28220 | 5' | -52.6 | NC_005891.1 | + | 3770 | 0.67 | 0.722111 |
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Target: 5'- cGACCCUgCGau-UAUGGuCaCAGAGCg -3' miRNA: 3'- aCUGGGA-GCauuGUACCuGcGUCUCG- -5' |
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| 28220 | 5' | -52.6 | NC_005891.1 | + | 18563 | 1.12 | 0.000742 |
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Target: 5'- uUGACCCUCGUAACAUGGACGCAGAGCu -3' miRNA: 3'- -ACUGGGAGCAUUGUACCUGCGUCUCG- -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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