miRNA: 3'- -ACGA-------GGUGGU-GUGCUgAGCUCCUAUU- -5'
miRNA: 3'- -ACGAGGUgGUGUGcuGAgCUCCUauu -5'
miRNA: 3'- -ACGA---GGUGGUGUGCUG-AGCU----CCUAUU- -5'
miRNA: 3'- -ACGAGGUGGUGUGCUGAGCUCCUAUU- -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 | |||||||
| 2591 | 5' | -54.1 | NC_001481.2 | + | 6758 | 0.66 | 0.198064 |
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Target: 5'- cUGCUuucaucaCCACCGcCACGG-UUGAGGGUAAu -3' miRNA: 3'- -ACGA-------GGUGGU-GUGCUgAGCUCCUAUU- -5' |
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| 2591 | 5' | -54.1 | NC_001481.2 | + | 1792 | 0.67 | 0.17487 |
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Target: 5'- aUGCUCCAgCACGC--CUgGAGGAg-- -3' miRNA: 3'- -ACGAGGUgGUGUGcuGAgCUCCUauu -5' |
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| 2591 | 5' | -54.1 | NC_001481.2 | + | 3029 | 0.67 | 0.169325 |
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Target: 5'- aUGCUacgUCACCGCGCGGCaUUGGgagcGGAUGAu -3' miRNA: 3'- -ACGA---GGUGGUGUGCUG-AGCU----CCUAUU- -5' |
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| 2591 | 5' | -54.1 | NC_001481.2 | + | 2677 | 1.06 | 0.000108 |
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Target: 5'- gUGCUCCACCACACGACUCGAGGAUAAc -3' miRNA: 3'- -ACGAGGUGGUGUGCUGAGCUCCUAUU- -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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