miRNA: 3'- aCGCUGCCuAG-------------GACGGCGUACaGUgU- -5'
miRNA: 3'- -ACGCUG-CCUAGGaCGGCGUaCa--GUGU- -5'
miRNA: 3'- aCGCugCCUAGGACG--GCG--UACa---GUGu -5'
miRNA: 3'- aCG---CugCCU-AGGACGGCG-----UA-CAGUGU- -5'
miRNA: 3'- -ACGCUGCCUAGGACGGCGUACAGUGU- -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 | |||||||
| 6293 | 5' | -56.2 | NC_001844.1 | + | 142206 | 0.66 | 0.885294 |
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Target: 5'- aGCGGCGGcUCauggccaccgaggCUGCCGCGUG-CGgAa -3' miRNA: 3'- aCGCUGCCuAG-------------GACGGCGUACaGUgU- -5' |
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| 6293 | 5' | -56.2 | NC_001844.1 | + | 120140 | 0.66 | 0.878947 |
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Target: 5'- aUGCGGCaGGAUCC-GUCGCAcGcccCACAu -3' miRNA: 3'- -ACGCUG-CCUAGGaCGGCGUaCa--GUGU- -5' |
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| 6293 | 5' | -56.2 | NC_001844.1 | + | 100415 | 0.68 | 0.797308 |
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Target: 5'- aGUGugGGAUCCUGCacCGCucAUGggggCGCc -3' miRNA: 3'- aCGCugCCUAGGACG--GCG--UACa---GUGu -5' |
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| 6293 | 5' | -56.2 | NC_001844.1 | + | 142310 | 0.68 | 0.77891 |
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Target: 5'- cGCcgaGugGGAgUCCUGCCGCccggcGUcGUCGCGc -3' miRNA: 3'- aCG---CugCCU-AGGACGGCG-----UA-CAGUGU- -5' |
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| 6293 | 5' | -56.2 | NC_001844.1 | + | 137962 | 1.09 | 0.002552 |
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Target: 5'- gUGCGACGGAUCCUGCCGCAUGUCACAg -3' miRNA: 3'- -ACGCUGCCUAGGACGGCGUACAGUGU- -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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