miRNA: 3'- gUACUGCUGCGaa----UUGCUAuaCGC-AG- -5'
miRNA: 3'- gUAC-UGCUGCGAAUUG-CU-AUAcGCAG- -5'
miRNA: 3'- -GUACUGCUGCGaauUGCUAUAC-GCag -5'
miRNA: 3'- -GUACUGCUGCGAAUUGCUAUACGCAG- -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 | |||||||
| 21134 | 3' | -47.1 | NC_004775.1 | + | 30905 | 0.66 | 0.978554 |
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Target: 5'- gGUGGCGAUGCgcgccaGGCGGUcaGCGgUCa -3' miRNA: 3'- gUACUGCUGCGaa----UUGCUAuaCGC-AG- -5' |
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| 21134 | 3' | -47.1 | NC_004775.1 | + | 35492 | 0.66 | 0.975751 |
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Target: 5'- uGUGcACGACGCUUGGCaGAcUGUcCGUUa -3' miRNA: 3'- gUAC-UGCUGCGAAUUG-CU-AUAcGCAG- -5' |
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| 21134 | 3' | -47.1 | NC_004775.1 | + | 16379 | 0.71 | 0.787147 |
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Target: 5'- uUAUGGCGGCGC---GCGAUAUGgCGa- -3' miRNA: 3'- -GUACUGCUGCGaauUGCUAUAC-GCag -5' |
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| 21134 | 3' | -47.1 | NC_004775.1 | + | 30129 | 1.09 | 0.004603 |
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Target: 5'- uCAUGACGACGCUUAACGAUAUGCGUCc -3' miRNA: 3'- -GUACUGCUGCGAAUUGCUAUACGCAG- -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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