miRNA: 3'- -CGCACCaCUAGUCG---------UGUCaCGGcaac -5'
miRNA: 3'- -CGCaCCACua------GUCGUGUCA-CGGCaac -5'
miRNA: 3'- -CGCA-CCa--CuaGUCG---UGUCACGGCaAC- -5'
miRNA: 3'- -CGC---ACCaCuaGUCG------UGUCACGGCAac -5'
Results 21 - 24 of 24 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 | |||||||
| 6489 | 3' | -53.3 | NC_001847.1 | + | 51142 | 0.66 | 0.964512 |
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Target: 5'- gGCGUGGcGAUCAGCagaacggggACGGcGCCu--- -3' miRNA: 3'- -CGCACCaCUAGUCG---------UGUCaCGGcaac -5' |
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| 6489 | 3' | -53.3 | NC_001847.1 | + | 32945 | 0.66 | 0.964512 |
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Target: 5'- cGCGcGGUGcccgcggaCAGCGCGGUgGCCGa-- -3' miRNA: 3'- -CGCaCCACua------GUCGUGUCA-CGGCaac -5' |
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| 6489 | 3' | -53.3 | NC_001847.1 | + | 79265 | 0.66 | 0.964512 |
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Target: 5'- gGCGUcGGgccGcgCGGCgaaGCGGUGCCGgUGa -3' miRNA: 3'- -CGCA-CCa--CuaGUCG---UGUCACGGCaAC- -5' |
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| 6489 | 3' | -53.3 | NC_001847.1 | + | 109372 | 0.66 | 0.964512 |
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Target: 5'- cGCGgaaUGG-GcgCAGCugggcuGCGGUGCCGUg- -3' miRNA: 3'- -CGC---ACCaCuaGUCG------UGUCACGGCAac -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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