miRNA: 3'- -GCa--GGCGUUGgGCGGuUGCaC-CGGAC- -5'
miRNA: 3'- gCAGGC--GUUG-GGCGGuuGCACCGGAc -5'
miRNA: 3'- gcAGGCGU---UGGG-------CGGUUGCAC-CGGac -5'
miRNA: 3'- -GCAGGCGUUGGGCGGUUGCACCGGAC- -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 | |||||||
| 30302 | 3' | -59.2 | NC_006324.1 | + | 14948 | 0.66 | 0.38436 |
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Target: 5'- cCGcugCCGUAGCgCGCCuGCG-GcGCCUGg -3' miRNA: 3'- -GCa--GGCGUUGgGCGGuUGCaC-CGGAC- -5' |
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| 30302 | 3' | -59.2 | NC_006324.1 | + | 20566 | 0.66 | 0.358016 |
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Target: 5'- gGUCCGaaCAGCgCCGCC--UGUGGCUUa -3' miRNA: 3'- gCAGGC--GUUG-GGCGGuuGCACCGGAc -5' |
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| 30302 | 3' | -59.2 | NC_006324.1 | + | 15015 | 0.67 | 0.332151 |
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Target: 5'- -cUCCGCAugcGCCCccuacggGCUAGCGUGcGCCg- -3' miRNA: 3'- gcAGGCGU---UGGG-------CGGUUGCAC-CGGac -5' |
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| 30302 | 3' | -59.2 | NC_006324.1 | + | 25183 | 1.07 | 0.000322 |
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Target: 5'- uCGUCCGCAACCCGCCAACGUGGCCUGc -3' miRNA: 3'- -GCAGGCGUUGGGCGGUUGCACCGGAC- -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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