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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 | |||||||
| 12633 | 5' | -55.2 | NC_003345.1 | + | 65047 | 0.66 | 0.810334 |
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Target: 5'- ---cCUCGGGGAaGGGGuGGUCu--- -3' miRNA: 3'- auuaGAGCCCCUaCCCCuUCAGccug -5' |
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| 12633 | 5' | -55.2 | NC_003345.1 | + | 445 | 0.66 | 0.800973 |
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Target: 5'- -----aCGGGGAgagacGGGGAgAGaCGGACg -3' miRNA: 3'- auuagaGCCCCUa----CCCCU-UCaGCCUG- -5' |
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| 12633 | 5' | -55.2 | NC_003345.1 | + | 68484 | 0.66 | 0.791441 |
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Target: 5'- cGGUCgCGGGGccacccGUGGGGcGGguaaucugcaUCGGACg -3' miRNA: 3'- aUUAGaGCCCC------UACCCCuUC----------AGCCUG- -5' |
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| 12633 | 5' | -55.2 | NC_003345.1 | + | 22176 | 0.68 | 0.664375 |
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Target: 5'- -cAUCaUGGGGcgGuGGGAgaagcacguccgaaAGUCGGACg -3' miRNA: 3'- auUAGaGCCCCuaC-CCCU--------------UCAGCCUG- -5' |
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| 12633 | 5' | -55.2 | NC_003345.1 | + | 77313 | 0.68 | 0.656826 |
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Target: 5'- ----gUCGGGGucggAUGGGGAggGGUCGG-Cu -3' miRNA: 3'- auuagAGCCCC----UACCCCU--UCAGCCuG- -5' |
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| 12633 | 5' | -55.2 | NC_003345.1 | + | 4854 | 0.73 | 0.392185 |
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Target: 5'- -cAUCUCGGGGucguGGAAGUCGGGa -3' miRNA: 3'- auUAGAGCCCCuaccCCUUCAGCCUg -5' |
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| 12633 | 5' | -55.2 | NC_003345.1 | + | 71570 | 0.73 | 0.378116 |
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Target: 5'- gUAGagUCGGcGGGUGGGGAGGUCaagucccgagagucgGGGCg -3' miRNA: 3'- -AUUagAGCC-CCUACCCCUUCAG---------------CCUG- -5' |
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| 12633 | 5' | -55.2 | NC_003345.1 | + | 46251 | 1.08 | 0.001809 |
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Target: 5'- gUAAUCUCGGGGAUGGGGAAGUCGGACu -3' miRNA: 3'- -AUUAGAGCCCCUACCCCUUCAGCCUG- -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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