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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 | |||||||
| 2827 | 3' | -58.6 | NC_001491.2 | + | 148583 | 0.66 | 0.805787 |
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Target: 5'- cGCG-CG-GUGgCUCUGCgCgGCGCCc -3' miRNA: 3'- aCGCaGCuCAUgGAGACG-GaCGCGGa -5' |
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| 2827 | 3' | -58.6 | NC_001491.2 | + | 148164 | 0.66 | 0.796934 |
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Target: 5'- cGCGUCcAGcACCaggaGCUUGCGCCUg -3' miRNA: 3'- aCGCAGcUCaUGGaga-CGGACGCGGA- -5' |
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| 2827 | 3' | -58.6 | NC_001491.2 | + | 137362 | 0.66 | 0.760146 |
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Target: 5'- cGCGcCGcc-GCCUgUGCCUGCggGCCUg -3' miRNA: 3'- aCGCaGCucaUGGAgACGGACG--CGGA- -5' |
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| 2827 | 3' | -58.6 | NC_001491.2 | + | 148542 | 0.68 | 0.691828 |
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Target: 5'- cGUGgaaccCGAGgcCCUCgGCCUGgGCCc -3' miRNA: 3'- aCGCa----GCUCauGGAGaCGGACgCGGa -5' |
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| 2827 | 3' | -58.6 | NC_001491.2 | + | 128583 | 0.69 | 0.628192 |
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Target: 5'- gGUGUCGuauGUuucgucaccgacaaACUUCcaUGCCUGCGCCa -3' miRNA: 3'- aCGCAGCu--CA--------------UGGAG--ACGGACGCGGa -5' |
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| 2827 | 3' | -58.6 | NC_001491.2 | + | 114585 | 0.72 | 0.446091 |
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Target: 5'- cUGCGcccCGuGUACCUC-GCCUGCgGCCg -3' miRNA: 3'- -ACGCa--GCuCAUGGAGaCGGACG-CGGa -5' |
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| 2827 | 3' | -58.6 | NC_001491.2 | + | 60193 | 0.76 | 0.244652 |
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Target: 5'- uUGCGUCGGGU-CCUCcgUGCCgGCGCUc -3' miRNA: 3'- -ACGCAGCUCAuGGAG--ACGGaCGCGGa -5' |
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| 2827 | 3' | -58.6 | NC_001491.2 | + | 115096 | 1.08 | 0.001803 |
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Target: 5'- cUGCGUCGAGUACCUCUGCCUGCGCCUg -3' miRNA: 3'- -ACGCAGCUCAUGGAGACGGACGCGGA- -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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