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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 | |||||||
| 2823 | 3' | -53.4 | NC_001491.2 | + | 148898 | 0.66 | 0.966608 |
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Target: 5'- gCCGGccccGUcgAUCUCgAgCUCGUCGUCGg -3' miRNA: 3'- aGGCCu---CG--UAGAGgUaGAGUAGCAGC- -5' |
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| 2823 | 3' | -53.4 | NC_001491.2 | + | 92480 | 0.67 | 0.943366 |
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Target: 5'- gCUGGAGUaauaGUCUCCGaCUCAagGUCc -3' miRNA: 3'- aGGCCUCG----UAGAGGUaGAGUagCAGc -5' |
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| 2823 | 3' | -53.4 | NC_001491.2 | + | 95368 | 0.68 | 0.921434 |
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Target: 5'- gUCUGGAaucCGUCUCCAuaaccuugguuccgUUUCAUCGUCc -3' miRNA: 3'- -AGGCCUc--GUAGAGGU--------------AGAGUAGCAGc -5' |
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| 2823 | 3' | -53.4 | NC_001491.2 | + | 43613 | 0.7 | 0.863477 |
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Target: 5'- cCUGaGAGUAUCUCCAgCUgCGUUGUCa -3' miRNA: 3'- aGGC-CUCGUAGAGGUaGA-GUAGCAGc -5' |
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| 2823 | 3' | -53.4 | NC_001491.2 | + | 115805 | 0.7 | 0.847753 |
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Target: 5'- gCCGGAGCcucggcCUCCuUCUCcUCGUCc -3' miRNA: 3'- aGGCCUCGua----GAGGuAGAGuAGCAGc -5' |
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| 2823 | 3' | -53.4 | NC_001491.2 | + | 118017 | 0.71 | 0.78682 |
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Target: 5'- gCCGGGGCGaguagCUCC-UCUuCGUCGUCc -3' miRNA: 3'- aGGCCUCGUa----GAGGuAGA-GUAGCAGc -5' |
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| 2823 | 3' | -53.4 | NC_001491.2 | + | 49765 | 0.73 | 0.71693 |
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Target: 5'- gCCGGGGCGUCUCCG-CUCAgacccagaacaGUCu -3' miRNA: 3'- aGGCCUCGUAGAGGUaGAGUag---------CAGc -5' |
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| 2823 | 3' | -53.4 | NC_001491.2 | + | 118089 | 1.09 | 0.00523 |
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Target: 5'- gUCCGGAGCAUCUCCAUCUCAUCGUCGu -3' miRNA: 3'- -AGGCCUCGUAGAGGUAGAGUAGCAGC- -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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