miRNA: 3'- -UGCGAGU------ACAAGUCGCC--UUACUaCAC- -5'
miRNA: 3'- -UGCG-AGUACAAGUCGCC-----UuaCU-------ACAC- -5'
miRNA: 3'- -UGCGAGUACaaGUCGCCu--UACUAcAC- -5'
miRNA: 3'- uGCGAGUACAaGUCGCCuuaCUACac -5'
miRNA: 3'- -UGCGAGUACAAGUCGCCUUACUACAC- -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 | |||||||
| 21202 | 3' | -49.5 | NC_004778.3 | + | 121988 | 0.68 | 0.983874 |
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Target: 5'- cAUGUUCAccuggaUGUUCGGCGGcuGGUGGaGUGg -3' miRNA: 3'- -UGCGAGU------ACAAGUCGCC--UUACUaCAC- -5' |
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| 21202 | 3' | -49.5 | NC_004778.3 | + | 121635 | 0.68 | 0.983676 |
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Target: 5'- aACGCgUCAUGUUUAGCGGcaaccGcgGAuuccacaUGUGg -3' miRNA: 3'- -UGCG-AGUACAAGUCGCC-----UuaCU-------ACAC- -5' |
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| 21202 | 3' | -49.5 | NC_004778.3 | + | 82968 | 0.69 | 0.96144 |
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Target: 5'- gACGCUCAUGg-CGGCGGcuuAUGAUaUGu -3' miRNA: 3'- -UGCGAGUACaaGUCGCCu--UACUAcAC- -5' |
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| 21202 | 3' | -49.5 | NC_004778.3 | + | 103137 | 0.69 | 0.96144 |
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Target: 5'- uUGCUCGUGUgCGGCGGcg-GGUGg- -3' miRNA: 3'- uGCGAGUACAaGUCGCCuuaCUACac -5' |
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| 21202 | 3' | -49.5 | NC_004778.3 | + | 101525 | 1.08 | 0.010268 |
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Target: 5'- cACGCUCAUGUUCAGCGGAAUGAUGUGu -3' miRNA: 3'- -UGCGAGUACAAGUCGCCUUACUACAC- -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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