miRNA: 3'- guaaCAGCCGCCGG-GuuaaCGGgGGC- -5'
miRNA: 3'- guaacAGCCGCCGGGUUAACGg------GggC- -5'
miRNA: 3'- guAACAGCCGCCGGguuaACG----GGGGc -5'
miRNA: 3'- guaaCaGCCGCCGGGUUAACGGgGGc -5'
miRNA: 3'- -GUAACAGCCGCCGGGUUAACGGGGGC- -5'
Results 1 - 5 of 5 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 | |||||||
| 17443 | 3' | -57.8 | NC_004453.1 | + | 13488 | 0.66 | 0.438728 |
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Target: 5'- ---gGUCGGCGGCCgCcgcaGCUgCCGa -3' miRNA: 3'- guaaCAGCCGCCGG-GuuaaCGGgGGC- -5' |
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| 17443 | 3' | -57.8 | NC_004453.1 | + | 19749 | 0.7 | 0.255261 |
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Target: 5'- ----aUCGGCGGCCCAGUUGCaguagcaUuuGa -3' miRNA: 3'- guaacAGCCGCCGGGUUAACGg------GggC- -5' |
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| 17443 | 3' | -57.8 | NC_004453.1 | + | 17791 | 0.72 | 0.184695 |
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Target: 5'- -cUUGUCGGCGGCCaacaUGCucuaCCCCa -3' miRNA: 3'- guAACAGCCGCCGGguuaACG----GGGGc -5' |
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| 17443 | 3' | -57.8 | NC_004453.1 | + | 10337 | 0.72 | 0.16997 |
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Target: 5'- ---cG-CGGCGGCCCAGUUGUCgUCa -3' miRNA: 3'- guaaCaGCCGCCGGGUUAACGGgGGc -5' |
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| 17443 | 3' | -57.8 | NC_004453.1 | + | 17223 | 1.07 | 0.000364 |
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Target: 5'- uCAUUGUCGGCGGCCCAAUUGCCCCCGu -3' miRNA: 3'- -GUAACAGCCGCCGGGUUAACGGGGGC- -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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