miRNA: 3'- aGCGGaaGCGGCCGUCGGAG------------CCGCUA- -5'
miRNA: 3'- aGCGGaagCGGCCGUCGGAGCCG--CUa -5'
miRNA: 3'- aGCGGAAGCGGC-Cgu-C-GGAGCCGCUA- -5'
miRNA: 3'- -AGCGGAAGCGGCCGUCGGAGCCGCUA- -5'
Results 41 - 44 of 44 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 | |||||||
| 12456 | 5' | -62.4 | NC_003324.1 | + | 2505 | 0.74 | 0.10198 |
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Target: 5'- cCGCCggCGUCGGCGGCUUCaucaucggcguuGGCGGUg -3' miRNA: 3'- aGCGGaaGCGGCCGUCGGAG------------CCGCUA- -5' |
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| 12456 | 5' | -62.4 | NC_003324.1 | + | 20173 | 0.74 | 0.099239 |
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Target: 5'- aCGCU---GCCGGCAGCCUCGGUcaGAg -3' miRNA: 3'- aGCGGaagCGGCCGUCGGAGCCG--CUa -5' |
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| 12456 | 5' | -62.4 | NC_003324.1 | + | 25568 | 0.78 | 0.04697 |
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Target: 5'- cCGCCUUCGCCGaGauuGuCCUCGGCGGUg -3' miRNA: 3'- aGCGGAAGCGGC-Cgu-C-GGAGCCGCUA- -5' |
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| 12456 | 5' | -62.4 | NC_003324.1 | + | 32474 | 1.05 | 0.000396 |
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Target: 5'- gUCGCCUUCGCCGGCAGCCUCGGCGAUc -3' miRNA: 3'- -AGCGGAAGCGGCCGUCGGAGCCGCUA- -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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