miRNA: 3'- cCGAAUCUGGuGGGUUUGGuucuGCG- -5'
miRNA: 3'- -CCGAA----------UCUGGUGGGU------------UUGGU--------------UCugCG- -5'
miRNA: 3'- -CCGAAuCU-GGUGGGUU-----UGGUuCugCG- -5'
miRNA: 3'- -CCGAAUCUGGUGGGuUUGGUUCUGCG- -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 | |||||||
| 33201 | 5' | -50.3 | NC_007522.1 | + | 3675 | 0.67 | 0.404524 |
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Target: 5'- aGCUUGGACUuUCCAAGCUucauCGCu -3' miRNA: 3'- cCGAAUCUGGuGGGUUUGGuucuGCG- -5' |
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| 33201 | 5' | -50.3 | NC_007522.1 | + | 7677 | 0.67 | 0.390482 |
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Target: 5'- cGGCUUuuuggaggugAGACCGCUCAaugagcugguccAACCAacagacuccgcugaAGugGCc -3' miRNA: 3'- -CCGAA----------UCUGGUGGGU------------UUGGU--------------UCugCG- -5' |
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| 33201 | 5' | -50.3 | NC_007522.1 | + | 2044 | 0.68 | 0.342448 |
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Target: 5'- uGGCUU-GAuCCAUCCGGcaaguGCCA-GugGCa -3' miRNA: 3'- -CCGAAuCU-GGUGGGUU-----UGGUuCugCG- -5' |
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| 33201 | 5' | -50.3 | NC_007522.1 | + | 7055 | 1.05 | 0.000541 |
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Target: 5'- uGGCUUAGACCACCC-AACCAAGACGCu -3' miRNA: 3'- -CCGAAUCUGGUGGGuUUGGUUCUGCG- -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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