miRNA: 3'- -ACGCGUGCGGGCAGuAGUG-CAAc--CUG- -5'
miRNA: 3'- -ACG-CGUGCGGg---CAGUAGU------GCAACCUG- -5'
miRNA: 3'- -ACg--CGUGCG-GGCAGUAGUGcaaCCUg -5'
miRNA: 3'- -ACGCGUGCGGGCAGUAGUGCAACCUG- -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 | |||||||
| 7569 | 5' | -56.3 | NC_001962.1 | + | 30760 | 0.68 | 0.785224 |
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Target: 5'- uUGUGCACGCCCGUC-UUGCaGUUuuuGAUa -3' miRNA: 3'- -ACGCGUGCGGGCAGuAGUG-CAAc--CUG- -5' |
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| 7569 | 5' | -56.3 | NC_001962.1 | + | 126970 | 0.68 | 0.747039 |
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Target: 5'- gUGCgGCACGCUgcugGUUAUCGaccaccCGUUGGACg -3' miRNA: 3'- -ACG-CGUGCGGg---CAGUAGU------GCAACCUG- -5' |
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| 7569 | 5' | -56.3 | NC_001962.1 | + | 112949 | 0.69 | 0.697062 |
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Target: 5'- gUGacaGCACGCaCCGUCGUCAUcg-GGAa -3' miRNA: 3'- -ACg--CGUGCG-GGCAGUAGUGcaaCCUg -5' |
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| 7569 | 5' | -56.3 | NC_001962.1 | + | 103123 | 1.1 | 0.001801 |
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Target: 5'- uUGCGCACGCCCGUCAUCACGUUGGACa -3' miRNA: 3'- -ACGCGUGCGGGCAGUAGUGCAACCUG- -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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