miRNA: 3'- uauAUUCA-CGUGG--------GCUCCAAAAUCCa -5'
miRNA: 3'- uAUAUUCACGUG-GGcucCAAAAUCCA- -5'
miRNA: 3'- -UAUAUUCACg---------UGGGCUCCAaaaUCCA- -5'
miRNA: 3'- uauauuCACGUGGGCUCCa--AaaUCCA- -5'
miRNA: 3'- -UAUAUUCACGUGGGCUCCAAAAUCCA- -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 | |||||||
| 9472 | 3' | -47.9 | NC_002531.1 | + | 38666 | 0.66 | 0.998212 |
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Target: 5'- --cUGGGUcGCACCaacccccgUGGGGUUUUAGGc -3' miRNA: 3'- uauAUUCA-CGUGG--------GCUCCAAAAUCCa -5' |
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| 9472 | 3' | -47.9 | NC_002531.1 | + | 45025 | 0.68 | 0.994019 |
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Target: 5'- uUGUAAGUGCACaCUu--GUUUUAGGUg -3' miRNA: 3'- uAUAUUCACGUG-GGcucCAAAAUCCA- -5' |
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| 9472 | 3' | -47.9 | NC_002531.1 | + | 80544 | 0.71 | 0.961291 |
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Target: 5'- cAUGUAAGUGgggucgaugaGCCCGGGGUgaaAGGUg -3' miRNA: 3'- -UAUAUUCACg---------UGGGCUCCAaaaUCCA- -5' |
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| 9472 | 3' | -47.9 | NC_002531.1 | + | 70687 | 0.72 | 0.933589 |
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Target: 5'- -----uGUGCACCCGAGGacgUgaAGGUg -3' miRNA: 3'- uauauuCACGUGGGCUCCa--AaaUCCA- -5' |
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| 9472 | 3' | -47.9 | NC_002531.1 | + | 26435 | 1.06 | 0.020573 |
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Target: 5'- cAUAUAAGUGCACCCGAGGUUUUAGGUu -3' miRNA: 3'- -UAUAUUCACGUGGGCUCCAAAAUCCA- -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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