miRNA: 3'- cGCCCC-CCCaaCAUGGGgaCGUCCUG- -5'
miRNA: 3'- cGCCcCCCCAACauGGGGAcGUCCUG- -5'
miRNA: 3'- -CGCCCCCCCAacaUGGGg-----------ACGUCCuG- -5'
miRNA: 3'- -CGCCCCCCCAACAUGGGGACGUCCUG- -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 | |||||||
| 3301 | 5' | -60.9 | NC_001545.1 | + | 813 | 0.68 | 0.066575 |
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Target: 5'- cCGGGGuGGGcgGUGUCCg-GCAGGACu -3' miRNA: 3'- cGCCCC-CCCaaCAUGGGgaCGUCCUG- -5' |
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| 3301 | 5' | -60.9 | NC_001545.1 | + | 3855 | 0.7 | 0.049939 |
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Target: 5'- cCGGuGGGGUUGccCCCCU-CGGGGCg -3' miRNA: 3'- cGCCcCCCCAACauGGGGAcGUCCUG- -5' |
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| 3301 | 5' | -60.9 | NC_001545.1 | + | 7051 | 0.7 | 0.04962 |
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Target: 5'- aGUGGGGGGGU---GCCCagguuggugaaaUGCAGGuCg -3' miRNA: 3'- -CGCCCCCCCAacaUGGGg-----------ACGUCCuG- -5' |
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| 3301 | 5' | -60.9 | NC_001545.1 | + | 8245 | 1.11 | 1.3e-05 |
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Target: 5'- gGCGGGGGGGUUGUACCCCUGCAGGACg -3' miRNA: 3'- -CGCCCCCCCAACAUGGGGACGUCCUG- -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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