miRNA: 3'- cACUGUc-GCUGAGUUAGUCa---GGCCAG- -5'
miRNA: 3'- caCUGUCGCU-GAGu-----UAG-UCA-GGCCAg -5'
miRNA: 3'- -CACUGUCG--CUgAGuua----GUCAGGCCAG- -5'
miRNA: 3'- cACU-GUCGCugAGUUAGUCAGGCCag -5'
miRNA: 3'- -CACUGUCGCUGAGUUAGUCAGGCCAG- -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 | |||||||
| 21043 | 5' | -52.9 | NC_004745.1 | + | 4787 | 0.66 | 0.647803 |
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Target: 5'- cUGAUAcaCGGCUCAAUCAGauugUUGGUCg -3' miRNA: 3'- cACUGUc-GCUGAGUUAGUCa---GGCCAG- -5' |
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| 21043 | 5' | -52.9 | NC_004745.1 | + | 16920 | 0.67 | 0.624343 |
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Target: 5'- -cGACGGCGAcCUCuuugguGUCcAGUcCCGGUa -3' miRNA: 3'- caCUGUCGCU-GAGu-----UAG-UCA-GGCCAg -5' |
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| 21043 | 5' | -52.9 | NC_004745.1 | + | 20881 | 0.68 | 0.509197 |
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Target: 5'- cGUGGCGGCauGAgUCcuugcggCGGUCUGGUCa -3' miRNA: 3'- -CACUGUCG--CUgAGuua----GUCAGGCCAG- -5' |
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| 21043 | 5' | -52.9 | NC_004745.1 | + | 4016 | 0.72 | 0.330249 |
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Target: 5'- cUGAcCGGCG--UCAGUCAGUCCGGa- -3' miRNA: 3'- cACU-GUCGCugAGUUAGUCAGGCCag -5' |
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| 21043 | 5' | -52.9 | NC_004745.1 | + | 8996 | 1.1 | 0.000618 |
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Target: 5'- gGUGACAGCGACUCAAUCAGUCCGGUCa -3' miRNA: 3'- -CACUGUCGCUGAGUUAGUCAGGCCAG- -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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