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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 | |||||||
| 9030 | 5' | -52.5 | NC_002512.2 | + | 60811 | 0.66 | 0.991741 |
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Target: 5'- gCGGGccgCGAcgCCGCCGC-CgCGGAg -3' miRNA: 3'- -GCUUaaaGCUuaGGCGGCGaG-GCCUa -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 135851 | 0.66 | 0.992782 |
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Target: 5'- cCGAAga---GAUCCGCCGCgaaaccgagcgUCCGGGUc -3' miRNA: 3'- -GCUUaaagcUUAGGCGGCG-----------AGGCCUA- -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 109061 | 0.66 | 0.992782 |
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Target: 5'- aCGAc---CGGAcCCGCCGCgucCCGGGUc -3' miRNA: 3'- -GCUuaaaGCUUaGGCGGCGa--GGCCUA- -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 71007 | 0.66 | 0.993716 |
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Target: 5'- aCGAAggaCGGGgggCCGCCGCcggCCGGu- -3' miRNA: 3'- -GCUUaaaGCUUa--GGCGGCGa--GGCCua -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 137873 | 0.66 | 0.993716 |
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Target: 5'- cCGAcgcccgCGAGUCCGCCGCcggcgacgCgGGAg -3' miRNA: 3'- -GCUuaaa--GCUUAGGCGGCGa-------GgCCUa -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 2213 | 0.66 | 0.99455 |
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Target: 5'- uCGGucgccggCGGcgCCGCCGCucuuccUCCGGAc -3' miRNA: 3'- -GCUuaaa---GCUuaGGCGGCG------AGGCCUa -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 118618 | 0.66 | 0.99455 |
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Target: 5'- gGGAcgUCGAcaucaagcucGUCCGCgugccgcccgaCGCUCCGGGc -3' miRNA: 3'- gCUUaaAGCU----------UAGGCG-----------GCGAGGCCUa -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 119332 | 0.66 | 0.995292 |
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Target: 5'- -----cUCGAuggCCGCCgagguGCUCCGGGc -3' miRNA: 3'- gcuuaaAGCUua-GGCGG-----CGAGGCCUa -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 220393 | 0.66 | 0.995292 |
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Target: 5'- cCGGccgUCGucuacCCGCCGCUCgCGGGc -3' miRNA: 3'- -GCUuaaAGCuua--GGCGGCGAG-GCCUa -5' |
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| 9030 | 5' | -52.5 | NC_002512.2 | + | 205888 | 0.66 | 0.995292 |
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Target: 5'- uCGcGUcgCGggUCC-CCGCUCgCGGGa -3' miRNA: 3'- -GCuUAaaGCuuAGGcGGCGAG-GCCUa -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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