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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 | |||||||
| 20536 | 3' | -47.6 | NC_004688.1 | + | 73876 | 0.66 | 0.998374 |
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Target: 5'- aGCCCCccgAGGggGcguugaggUCGGGGAGg- -3' miRNA: 3'- -CGGGGcaaUCCuuCua------AGUCCUUUaa -5' |
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| 20536 | 3' | -47.6 | NC_004688.1 | + | 27537 | 0.66 | 0.997624 |
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Target: 5'- gGCCCgGccGGGGA---UCAGGAAGUUg -3' miRNA: 3'- -CGGGgCaaUCCUUcuaAGUCCUUUAA- -5' |
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| 20536 | 3' | -47.6 | NC_004688.1 | + | 54095 | 0.67 | 0.995975 |
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Target: 5'- gGCCCCGcaguagcccAGGAGGAgcgUCAGGc---- -3' miRNA: 3'- -CGGGGCaa-------UCCUUCUa--AGUCCuuuaa -5' |
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| 20536 | 3' | -47.6 | NC_004688.1 | + | 102316 | 0.68 | 0.993489 |
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Target: 5'- uCCCCucgAGGAcuGGcgUCAGGAAGUc -3' miRNA: 3'- cGGGGcaaUCCU--UCuaAGUCCUUUAa -5' |
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| 20536 | 3' | -47.6 | NC_004688.1 | + | 24182 | 0.69 | 0.98675 |
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Target: 5'- gGCCCCGcccgUGGGGAuc-UCGGGAGGa- -3' miRNA: 3'- -CGGGGCa---AUCCUUcuaAGUCCUUUaa -5' |
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| 20536 | 3' | -47.6 | NC_004688.1 | + | 34946 | 0.69 | 0.980679 |
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Target: 5'- cGCCCCGgcagcgucgAGGAAG-UUCGGGuuGa- -3' miRNA: 3'- -CGGGGCaa-------UCCUUCuAAGUCCuuUaa -5' |
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| 20536 | 3' | -47.6 | NC_004688.1 | + | 28122 | 0.71 | 0.958808 |
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Target: 5'- cGCCCCagaucGGGAGGAUgagCAGGAu--- -3' miRNA: 3'- -CGGGGcaa--UCCUUCUAa--GUCCUuuaa -5' |
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| 20536 | 3' | -47.6 | NC_004688.1 | + | 88630 | 1.08 | 0.01408 |
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Target: 5'- aGCCCCGUUAGGAAGAUUCAGGAAAUUu -3' miRNA: 3'- -CGGGGCAAUCCUUCUAAGUCCUUUAA- -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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