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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 4238 | 3' | -55.4 | NC_001702.1 | + | 3385 | 0.66 | 0.175137 |
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Target: 5'- gCCGAggCCCGGuaucCGAGguCCCCUAGGg -3' miRNA: 3'- aGGUUuaGGGCCu---GCUC--GGGGGUUUa -5' |
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| 4238 | 3' | -55.4 | NC_001702.1 | + | 2966 | 0.67 | 0.149349 |
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Target: 5'- cUCAGAUCCUGGACaGGCCUgUAAu- -3' miRNA: 3'- aGGUUUAGGGCCUGcUCGGGgGUUua -5' |
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| 4238 | 3' | -55.4 | NC_001702.1 | + | 6449 | 0.73 | 0.055283 |
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Target: 5'- aCCGGGUCaCCGGGuCG-GCCCCCGu-- -3' miRNA: 3'- aGGUUUAG-GGCCU-GCuCGGGGGUuua -5' |
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| 4238 | 3' | -55.4 | NC_001702.1 | + | 176 | 1.03 | 0.000158 |
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Target: 5'- cUCCAAAUCCCGGACGAGCCCCCAAu- -3' miRNA: 3'- -AGGUUUAGGGCCUGCUCGGGGGUUua -5' |
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| 4238 | 3' | -55.4 | NC_001702.1 | + | 5374 | 0.77 | 0.026076 |
|
Target: 5'- aCCGAG-CCCGGAacacucCGGGCCCCCAu-- -3' miRNA: 3'- aGGUUUaGGGCCU------GCUCGGGGGUuua -5' |
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| 4238 | 3' | -55.4 | NC_001702.1 | + | 426 | 0.67 | 0.144624 |
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Target: 5'- gUCCGAGUCCugaccgauuCGGACuauuugGAGCCCCUc--- -3' miRNA: 3'- -AGGUUUAGG---------GCCUG------CUCGGGGGuuua -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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