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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 | |||||||
| 31639 | 3' | -58.4 | NC_006879.1 | + | 20581 | 0.66 | 0.419057 |
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Target: 5'- --cGCuCUGGCCUcCACGCCCgaCCAcugcgucacccUGGa -3' miRNA: 3'- gcaCGuGACCGGA-GUGUGGG--GGU-----------ACC- -5' |
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| 31639 | 3' | -58.4 | NC_006879.1 | + | 8020 | 0.67 | 0.338743 |
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Target: 5'- cCGUGgAC--GCCUCuuccaACACCCCCcUGGa -3' miRNA: 3'- -GCACgUGacCGGAG-----UGUGGGGGuACC- -5' |
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| 31639 | 3' | -58.4 | NC_006879.1 | + | 9990 | 0.68 | 0.2992 |
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Target: 5'- -uUGCGCccGCCUCACggggcagagcguGCCCaCCAUGGa -3' miRNA: 3'- gcACGUGacCGGAGUG------------UGGG-GGUACC- -5' |
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| 31639 | 3' | -58.4 | NC_006879.1 | + | 8148 | 0.69 | 0.270209 |
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Target: 5'- aCGUGcCACU-GCCUcCGCugCCCCccGGc -3' miRNA: 3'- -GCAC-GUGAcCGGA-GUGugGGGGuaCC- -5' |
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| 31639 | 3' | -58.4 | NC_006879.1 | + | 20694 | 1.1 | 0.000214 |
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Target: 5'- uCGUGCACUGGCCUCACACCCCCAUGGa -3' miRNA: 3'- -GCACGUGACCGGAGUGUGGGGGUACC- -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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