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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 | |||||||
| 17967 | 3' | -50.9 | NC_004665.1 | + | 9734 | 0.66 | 0.850969 |
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Target: 5'- cACGg--GCAGAGUCCCAcGAgag-GCCc -3' miRNA: 3'- -UGCgagUGUCUCAGGGU-CUaaaaCGG- -5' |
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| 17967 | 3' | -50.9 | NC_004665.1 | + | 28556 | 0.66 | 0.832372 |
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Target: 5'- cUGCUCgcGCAGAGcCUCAGA----GCCg -3' miRNA: 3'- uGCGAG--UGUCUCaGGGUCUaaaaCGG- -5' |
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| 17967 | 3' | -50.9 | NC_004665.1 | + | 11730 | 0.66 | 0.822709 |
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Target: 5'- uUGCUCACGGuGUCCUgauaggcagcuuGGGUa--GCCg -3' miRNA: 3'- uGCGAGUGUCuCAGGG------------UCUAaaaCGG- -5' |
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| 17967 | 3' | -50.9 | NC_004665.1 | + | 2760 | 0.66 | 0.812819 |
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Target: 5'- cACGCucaUCACGGAGcaUCgCAGAgaagUGCUg -3' miRNA: 3'- -UGCG---AGUGUCUC--AGgGUCUaaa-ACGG- -5' |
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| 17967 | 3' | -50.9 | NC_004665.1 | + | 28845 | 0.67 | 0.749407 |
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Target: 5'- uGCGCUCACcguGGAGaCCCAGAa------ -3' miRNA: 3'- -UGCGAGUG---UCUCaGGGUCUaaaacgg -5' |
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| 17967 | 3' | -50.9 | NC_004665.1 | + | 3640 | 0.68 | 0.704246 |
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Target: 5'- cUGCUCACGGaAGUCCUcaaGGAcgUUGUUg -3' miRNA: 3'- uGCGAGUGUC-UCAGGG---UCUaaAACGG- -5' |
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| 17967 | 3' | -50.9 | NC_004665.1 | + | 32887 | 0.7 | 0.610919 |
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Target: 5'- cACGCagaggCugGGAGaaaaUCCCAGAUg-UGCCu -3' miRNA: 3'- -UGCGa----GugUCUC----AGGGUCUAaaACGG- -5' |
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| 17967 | 3' | -50.9 | NC_004665.1 | + | 3158 | 1.13 | 0.000796 |
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Target: 5'- gACGCUCACAGAGUCCCAGAUUUUGCCa -3' miRNA: 3'- -UGCGAGUGUCUCAGGGUCUAAAACGG- -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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