miRNA: 3'- aACU--AUGa--CAGGUa------AGGgAGGGUCCG- -5'
miRNA: 3'- -AACua-UGACAGGUAAG-----GGAGGGU--CCG- -5'
miRNA: 3'- aACUAUGACaGGUA------------AGGG-----------AGGGUCCG- -5'
miRNA: 3'- -AACUAUGACAGGUAAGGGAGGGUCCG- -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 | |||||||
| 2138 | 3' | -53.3 | NC_001362.1 | + | 6214 | 0.66 | 0.251307 |
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Target: 5'- aUGAguUACcugGUCCAgcuuaagUCUgUUCCAGGCa -3' miRNA: 3'- aACU--AUGa--CAGGUa------AGGgAGGGUCCG- -5' |
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| 2138 | 3' | -53.3 | NC_001362.1 | + | 700 | 0.66 | 0.236311 |
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Target: 5'- gUUGuggGCUGUCCGUUCgacauCCUUCCAguGGUc -3' miRNA: 3'- -AACua-UGACAGGUAAG-----GGAGGGU--CCG- -5' |
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| 2138 | 3' | -53.3 | NC_001362.1 | + | 5966 | 0.7 | 0.132656 |
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Target: 5'- cUGAUAUUGcCCAUacugucucccgaUCCCcauuggucacuUCCCAGGUa -3' miRNA: 3'- aACUAUGACaGGUA------------AGGG-----------AGGGUCCG- -5' |
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| 2138 | 3' | -53.3 | NC_001362.1 | + | 1304 | 1.11 | 6.2e-05 |
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Target: 5'- aUUGAUACUGUCCAUUCCCUCCCAGGCg -3' miRNA: 3'- -AACUAUGACAGGUAAGGGAGGGUCCG- -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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