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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 | |||||||
| 12223 | 3' | -58.8 | NC_003309.1 | + | 32679 | 0.66 | 0.511225 |
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Target: 5'- uGCGGGAGaAGCGguaGGGUccguaacgaucucgaAGCCGGGg -3' miRNA: 3'- uCGUCUUC-UCGCug-CUCG---------------UCGGCCCa -5' |
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| 12223 | 3' | -58.8 | NC_003309.1 | + | 5772 | 0.66 | 0.496817 |
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Target: 5'- aAGCGGAAcGuGCG-CGGGgccaugaucCAGCCGGGc -3' miRNA: 3'- -UCGUCUU-CuCGCuGCUC---------GUCGGCCCa -5' |
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| 12223 | 3' | -58.8 | NC_003309.1 | + | 41295 | 0.67 | 0.455738 |
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Target: 5'- uGCGGGAuGGGaacggcuUGACGcuGGCGGCCGGGc -3' miRNA: 3'- uCGUCUU-CUC-------GCUGC--UCGUCGGCCCa -5' |
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| 12223 | 3' | -58.8 | NC_003309.1 | + | 36790 | 0.67 | 0.437331 |
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Target: 5'- cGCGGAgauucaAGAGCgGACGcucggcgguGGCGGuuGGGUc -3' miRNA: 3'- uCGUCU------UCUCG-CUGC---------UCGUCggCCCA- -5' |
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| 12223 | 3' | -58.8 | NC_003309.1 | + | 41400 | 0.67 | 0.406405 |
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Target: 5'- aGGCAccgcccgucgaaucGAAGaAGCGGCGGGCaAGCCGcGUg -3' miRNA: 3'- -UCGU--------------CUUC-UCGCUGCUCG-UCGGCcCA- -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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