miRNA: 3'- agUCGUgUCGCaCGGCCUCC-UCAagu -5'
miRNA: 3'- -AGUCGU-GUCGCA---CGGCCuCCU-CAAGU- -5'
miRNA: 3'- -AGUcGUGUCgCACGGCC-UCCUCaagu -5'
miRNA: 3'- -AGUCGUGUCGCACGGCCUCCUCAagu -5'
miRNA: 3'- -AGUCGUGUCGCACGGCCUCCUCAAGU- -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 | |||||||
| 8845 | 3' | -56.5 | NC_002484.1 | + | 33145 | 0.68 | 0.486812 |
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Target: 5'- -aGGCGgAGCG-GCCGGAGGuGGUg-- -3' miRNA: 3'- agUCGUgUCGCaCGGCCUCC-UCAagu -5' |
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| 8845 | 3' | -56.5 | NC_002484.1 | + | 27344 | 0.7 | 0.372567 |
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Target: 5'- gUCAGCGcCGGCGUuccGCUGGcGGAuGUUCGg -3' miRNA: 3'- -AGUCGU-GUCGCA---CGGCCuCCU-CAAGU- -5' |
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| 8845 | 3' | -56.5 | NC_002484.1 | + | 27667 | 0.71 | 0.355372 |
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Target: 5'- gUCAaCACAGgGUGCCGGcGGGAGg--- -3' miRNA: 3'- -AGUcGUGUCgCACGGCC-UCCUCaagu -5' |
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| 8845 | 3' | -56.5 | NC_002484.1 | + | 41863 | 0.98 | 0.004399 |
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Target: 5'- cUCAGCACAGCGUGCCGGAGGGGUg-- -3' miRNA: 3'- -AGUCGUGUCGCACGGCCUCCUCAagu -5' |
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| 8845 | 3' | -56.5 | NC_002484.1 | + | 32653 | 1.09 | 0.000756 |
|
Target: 5'- cUCAGCACAGCGUGCCGGAGGAGUUCAu -3' miRNA: 3'- -AGUCGUGUCGCACGGCCUCCUCAAGU- -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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