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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 | |||||||
| 13130 | 3' | -52 | NC_003401.1 | + | 25922 | 0.66 | 0.986158 |
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Target: 5'- cCCGaGGGUCCCGg---GCUccccguUCCCgagGGu -3' miRNA: 3'- -GGUgCUCAGGGCaaaaCGA------AGGGa--CC- -5' |
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| 13130 | 3' | -52 | NC_003401.1 | + | 117598 | 0.66 | 0.985989 |
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Target: 5'- uCCGCGAGUUggGUUUUGUuuacaagUUCCCUa- -3' miRNA: 3'- -GGUGCUCAGggCAAAACG-------AAGGGAcc -5' |
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| 13130 | 3' | -52 | NC_003401.1 | + | 13615 | 0.66 | 0.985646 |
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Target: 5'- cCCG-GAGUCCCGccaggcgUUGCguguaguaguuguaUUCCCUGa -3' miRNA: 3'- -GGUgCUCAGGGCaa-----AACG--------------AAGGGACc -5' |
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| 13130 | 3' | -52 | NC_003401.1 | + | 85202 | 0.66 | 0.980368 |
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Target: 5'- aCUcUGGGUUUCGggUUGU-UCCCUGGg -3' miRNA: 3'- -GGuGCUCAGGGCaaAACGaAGGGACC- -5' |
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| 13130 | 3' | -52 | NC_003401.1 | + | 58220 | 1.13 | 0.004312 |
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Target: 5'- gCCACGAGUCCCGUUUUGCUUCCCUGGu -3' miRNA: 3'- -GGUGCUCAGGGCAAAACGAAGGGACC- -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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