miRNA: 3'- cuUAUGAGuug-CGGUCGcACGAGUGC- -5'
miRNA: 3'- cUUAUGAGUUGCGGU-CGc---ACGA-GUGC- -5'
miRNA: 3'- -CUUAUGAGuuGCGG--UCGCACgAGUGc -5'
miRNA: 3'- -CUUAUGAGUUGCGGUCGCACGAGUGC- -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 | |||||||
| 1234 | 3' | -51.5 | NC_001271.1 | + | 3475 | 0.66 | 0.793316 |
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Target: 5'- -cAUGCUCuaaaGCCAGU-UGUUCACGa -3' miRNA: 3'- cuUAUGAGuug-CGGUCGcACGAGUGC- -5' |
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| 1234 | 3' | -51.5 | NC_001271.1 | + | 2502 | 0.67 | 0.728515 |
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Target: 5'- cGAUAUUCAGCGCCAuGCugguUGUUaCACGg -3' miRNA: 3'- cUUAUGAGUUGCGGU-CGc---ACGA-GUGC- -5' |
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| 1234 | 3' | -51.5 | NC_001271.1 | + | 17106 | 0.76 | 0.269302 |
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Target: 5'- aGAAUGCUCcgUGCCuuGGCGUGgUCACa -3' miRNA: 3'- -CUUAUGAGuuGCGG--UCGCACgAGUGc -5' |
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| 1234 | 3' | -51.5 | NC_001271.1 | + | 31337 | 1.1 | 0.001271 |
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Target: 5'- uGAAUACUCAACGCCAGCGUGCUCACGg -3' miRNA: 3'- -CUUAUGAGUUGCGGUCGCACGAGUGC- -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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