miRNA: 3'- cuUUUCUACGuGGU-----UGA---CCAUCGUAg -5'
miRNA: 3'- cuuUUCUACGUGGUug---ACCAuCGUAg -5'
miRNA: 3'- -CUUu-UCUACG-UGGUUGACCAuCGUAG- -5'
miRNA: 3'- -CUUUUCUACGUGGUUGACCaUCGUAG- -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 | |||||||
| 6196 | 5' | -47.1 | NC_001841.1 | + | 1585 | 0.66 | 0.6901 |
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Target: 5'- -uGGAGAUGC-CCGucagaGCUugaGGUGGCAUa -3' miRNA: 3'- cuUUUCUACGuGGU-----UGA---CCAUCGUAg -5' |
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| 6196 | 5' | -47.1 | NC_001841.1 | + | 1304 | 0.66 | 0.663408 |
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Target: 5'- --cAAGGUGCACCAcaagaUGGU-GCGUa -3' miRNA: 3'- cuuUUCUACGUGGUug---ACCAuCGUAg -5' |
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| 6196 | 5' | -47.1 | NC_001841.1 | + | 1021 | 0.71 | 0.343472 |
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Target: 5'- cGAAuuGGAUGCuACCAGUUGGU-GCAUCu -3' miRNA: 3'- -CUUu-UCUACG-UGGUUGACCAuCGUAG- -5' |
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| 6196 | 5' | -47.1 | NC_001841.1 | + | 979 | 0.99 | 0.00349 |
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Target: 5'- gGAAAAGAUGCACCAACUGG-AGCAUCc -3' miRNA: 3'- -CUUUUCUACGUGGUUGACCaUCGUAG- -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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