miRNA: 3'- -CGGUGGUa-----ACUCG-------------GGGCGC-------UGAAACG- -5'
miRNA: 3'- cGGUGGU-------AACUCGG--GGCGCUG-------------AAACG- -5'
miRNA: 3'- -CGGUGGUAACUCGGGGCGCUGAAACG- -5'
Results 1 - 3 of 3 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 | |||||||
| 32620 | 5' | -54.1 | NC_007192.1 | + | 5443 | 0.67 | 0.140747 |
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Target: 5'- uGCCGCCAgccaacUGGGCcgacucccaauucCCUGCGgaagcgcGCUUUGCc -3' miRNA: 3'- -CGGUGGUa-----ACUCG-------------GGGCGC-------UGAAACG- -5' |
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| 32620 | 5' | -54.1 | NC_007192.1 | + | 5561 | 0.7 | 0.084759 |
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Target: 5'- aCCACCGacugaacUUGAGCUcuCCGCGGCccaaacugcuaagUUUGCg -3' miRNA: 3'- cGGUGGU-------AACUCGG--GGCGCUG-------------AAACG- -5' |
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| 32620 | 5' | -54.1 | NC_007192.1 | + | 421 | 1.13 | 1.9e-05 |
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Target: 5'- cGCCACCAUUGAGCCCCGCGACUUUGCc -3' miRNA: 3'- -CGGUGGUAACUCGGGGCGCUGAAACG- -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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