miRNA: 3'- gUCGGCG--ACCGUauaAUG-CUUUUGGg -5'
miRNA: 3'- gucGGCGACCGUa--UAAUGcuUUUGGg -5'
miRNA: 3'- gUCGGCGACCG---------------UAUaa-UGCUuuUGGG- -5'
miRNA: 3'- -GUCGgCG-ACCGuaUAaugCUUUUGGG- -5'
miRNA: 3'- -GUCGGCGACCGUAUAAUGCUUUUGGG- -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 | |||||||
| 17234 | 3' | -48.8 | NC_004348.1 | + | 32204 | 0.66 | 0.928176 |
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Target: 5'- gGGCCGCaaUGGUGcg-UACuGAAAACCg -3' miRNA: 3'- gUCGGCG--ACCGUauaAUG-CUUUUGGg -5' |
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| 17234 | 3' | -48.8 | NC_004348.1 | + | 21176 | 0.66 | 0.921938 |
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Target: 5'- --cCCGCUGGCAgggAUUGC--AGGCCg -3' miRNA: 3'- gucGGCGACCGUa--UAAUGcuUUUGGg -5' |
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| 17234 | 3' | -48.8 | NC_004348.1 | + | 34594 | 0.68 | 0.881189 |
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Target: 5'- uGGUCGCUGGCuaaagucguaguuugAUAgugAUGGcuGCCCg -3' miRNA: 3'- gUCGGCGACCG---------------UAUaa-UGCUuuUGGG- -5' |
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| 17234 | 3' | -48.8 | NC_004348.1 | + | 22363 | 0.71 | 0.715656 |
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Target: 5'- cCGGCgGCaUGGUcgAUggaGAAAGCCCa -3' miRNA: 3'- -GUCGgCG-ACCGuaUAaugCUUUUGGG- -5' |
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| 17234 | 3' | -48.8 | NC_004348.1 | + | 26961 | 1.13 | 0.001786 |
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Target: 5'- uCAGCCGCUGGCAUAUUACGAAAACCCu -3' miRNA: 3'- -GUCGGCGACCGUAUAAUGCUUUUGGG- -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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