miRNA: 3'- -UCAAGCGCCCa--CAGUGgg--GUGGCUuc -5'
miRNA: 3'- -UCaAGCGCCCACAGUgGGGU-----------GGCUuc -5'
miRNA: 3'- ucAAGcGCCC-AC---AGUGG-GGUGGCUUC- -5'
miRNA: 3'- -UCAAGCGcCCACAGUGGGGUGGCUUC- -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 | |||||||
| 26561 | 5' | -57 | NC_005357.1 | + | 8423 | 0.66 | 0.53298 |
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Target: 5'- cAGUUCGCGGGggcGUCGCggaaCAUCGGc- -3' miRNA: 3'- -UCAAGCGCCCa--CAGUGgg--GUGGCUuc -5' |
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| 26561 | 5' | -57 | NC_005357.1 | + | 1797 | 0.67 | 0.51181 |
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Target: 5'- aAGgUUGUGGGUGUCGgCCCAuugcgcaugacCCGAc- -3' miRNA: 3'- -UCaAGCGCCCACAGUgGGGU-----------GGCUuc -5' |
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| 26561 | 5' | -57 | NC_005357.1 | + | 17188 | 0.67 | 0.490997 |
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Target: 5'- -uUUC-CGGGcUGauuUCGCCgCCGCCGAAGg -3' miRNA: 3'- ucAAGcGCCC-AC---AGUGG-GGUGGCUUC- -5' |
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| 26561 | 5' | -57 | NC_005357.1 | + | 17957 | 0.97 | 0.004237 |
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Target: 5'- aAGUUCGC-GGUGUCACCCCACCGAAGg -3' miRNA: 3'- -UCAAGCGcCCACAGUGGGGUGGCUUC- -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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