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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 7032 | 3' | -55.7 | NC_001876.1 | + | 12267 | 0.72 | 0.230934 |
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Target: 5'- uGCGGCUAUGGCCCCUgacuACUUUu---- -3' miRNA: 3'- gUGCCGGUACCGGGGG----UGAGAuuauc -5' |
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| 7032 | 3' | -55.7 | NC_001876.1 | + | 14813 | 0.69 | 0.377732 |
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Target: 5'- aCGCGGCCAUGGCCauggcggcgCCAgCUCg----- -3' miRNA: 3'- -GUGCCGGUACCGGg--------GGU-GAGauuauc -5' |
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| 7032 | 3' | -55.7 | NC_001876.1 | + | 22660 | 0.67 | 0.47566 |
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Target: 5'- gCGCGGCCGcuucGGCCCCCucacguaACUCc----- -3' miRNA: 3'- -GUGCCGGUa---CCGGGGG-------UGAGauuauc -5' |
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| 7032 | 3' | -55.7 | NC_001876.1 | + | 3238 | 0.67 | 0.476714 |
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Target: 5'- -uCGGCCAUGuuguccCCCCCAgUCUGGg-- -3' miRNA: 3'- guGCCGGUACc-----GGGGGUgAGAUUauc -5' |
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| 7032 | 3' | -55.7 | NC_001876.1 | + | 23672 | 0.68 | 0.386996 |
|
Target: 5'- cCugGGCCGUGGCCUCgGgCUCc----- -3' miRNA: 3'- -GugCCGGUACCGGGGgU-GAGauuauc -5' |
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| 7032 | 3' | -55.7 | NC_001876.1 | + | 14863 | 0.7 | 0.301256 |
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Target: 5'- cCAUGGCCAUGGCCgcgUCUGCUgcGAUAGc -3' miRNA: 3'- -GUGCCGGUACCGG---GGGUGAgaUUAUC- -5' |
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| 7032 | 3' | -55.7 | NC_001876.1 | + | 15962 | 0.74 | 0.179974 |
|
Target: 5'- cUACGGgagcagaaagauCCAUGGCCUCCACUUUAAUc- -3' miRNA: 3'- -GUGCC------------GGUACCGGGGGUGAGAUUAuc -5' |
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| 7032 | 3' | -55.7 | NC_001876.1 | + | 2326 | 1.08 | 0.000552 |
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Target: 5'- cCACGGCCAUGGCCCCCACUCUAAUAGc -3' miRNA: 3'- -GUGCCGGUACCGGGGGUGAGAUUAUC- -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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