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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 | |||||||
| 20811 | 5' | -50.2 | NC_004689.1 | + | 15423 | 0.66 | 0.968108 |
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Target: 5'- aUGAGgUcu-CGCGGaCCCCgGUUGAUCg -3' miRNA: 3'- -ACUUgAaauGCGCUaGGGG-CAGCUAG- -5' |
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| 20811 | 5' | -50.2 | NC_004689.1 | + | 44881 | 0.66 | 0.956962 |
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Target: 5'- gGAGC-UUGCGCgGAUCgggCCUGcCGGUCa -3' miRNA: 3'- aCUUGaAAUGCG-CUAG---GGGCaGCUAG- -5' |
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| 20811 | 5' | -50.2 | NC_004689.1 | + | 52781 | 0.67 | 0.938347 |
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Target: 5'- uUGGACUUguUGCG-UCCCuCGggaUCGAUCa -3' miRNA: 3'- -ACUUGAAauGCGCuAGGG-GC---AGCUAG- -5' |
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| 20811 | 5' | -50.2 | NC_004689.1 | + | 41095 | 0.68 | 0.908746 |
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Target: 5'- aUGAugUU--CGCGGUCUCCGUgaugaacgucUGAUCg -3' miRNA: 3'- -ACUugAAauGCGCUAGGGGCA----------GCUAG- -5' |
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| 20811 | 5' | -50.2 | NC_004689.1 | + | 70528 | 0.68 | 0.90198 |
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Target: 5'- gGggUUUUAgGUG-UCCCCuuucuGUCGAUCu -3' miRNA: 3'- aCuuGAAAUgCGCuAGGGG-----CAGCUAG- -5' |
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| 20811 | 5' | -50.2 | NC_004689.1 | + | 62100 | 0.75 | 0.574089 |
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Target: 5'- aGAACUUguugugcucggUGCGCGGcucUCCCgCGUCGAUa -3' miRNA: 3'- aCUUGAA-----------AUGCGCU---AGGG-GCAGCUAg -5' |
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| 20811 | 5' | -50.2 | NC_004689.1 | + | 36081 | 0.75 | 0.563087 |
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Target: 5'- aGGGCUgggUGCGCGAUCCUCGggCGuuUCa -3' miRNA: 3'- aCUUGAa--AUGCGCUAGGGGCa-GCu-AG- -5' |
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| 20811 | 5' | -50.2 | NC_004689.1 | + | 39578 | 1.1 | 0.004344 |
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Target: 5'- uUGAACUUUACGCGAUCCCCGUCGAUCc -3' miRNA: 3'- -ACUUGAAAUGCGCUAGGGGCAGCUAG- -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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