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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio #
|
P value |
| Predicted miRNA align pattern | |||||||
| 3486 | 3' | -57.5 | NC_001609.1 | + | 6708 | 0.66 | 0.203276 |
|
Target: 5'- ----gCAGCCUgcCACCGGCuGAcCCGGc -3' miRNA: 3'- guuuaGUCGGA--GUGGCCG-CUcGGCCa -5' |
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| 3486 | 3' | -57.5 | NC_001609.1 | + | 10104 | 0.67 | 0.156849 |
|
Target: 5'- ----aCAGCCUUuuCCGGUGcgacguagcccugauGGCCGGUg -3' miRNA: 3'- guuuaGUCGGAGu-GGCCGC---------------UCGGCCA- -5' |
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| 3486 | 3' | -57.5 | NC_001609.1 | + | 7189 | 0.68 | 0.124811 |
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Target: 5'- gGAggCGGCCaUCGCCGcUGAGCUGGa -3' miRNA: 3'- gUUuaGUCGG-AGUGGCcGCUCGGCCa -5' |
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| 3486 | 3' | -57.5 | NC_001609.1 | + | 7547 | 0.71 | 0.07523 |
|
Target: 5'- -cGGUCAGCCgggcagCACCGGUG-GCgCGGg -3' miRNA: 3'- guUUAGUCGGa-----GUGGCCGCuCG-GCCa -5' |
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| 3486 | 3' | -57.5 | NC_001609.1 | + | 8494 | 0.72 | 0.062026 |
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Target: 5'- gCGGggCAGCCUC-CgGGCuGGCCGGUa -3' miRNA: 3'- -GUUuaGUCGGAGuGgCCGcUCGGCCA- -5' |
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| 3486 | 3' | -57.5 | NC_001609.1 | + | 10190 | 0.75 | 0.034532 |
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Target: 5'- -cGGUCAGCCggagaACCGGCucGCCGGUg -3' miRNA: 3'- guUUAGUCGGag---UGGCCGcuCGGCCA- -5' |
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| 3486 | 3' | -57.5 | NC_001609.1 | + | 10139 | 1.06 | 0.000096 |
|
Target: 5'- gCAAAUCAGCCUCACCGGCGAGCCGGUu -3' miRNA: 3'- -GUUUAGUCGGAGUGGCCGCUCGGCCA- -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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