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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
28536 | 3' | -53.2 | NC_005946.1 | + | 3424 | 0.66 | 0.938439 |
Target: 5'- -aCGAGCACUACGacuacacccUCGGcGACUggCUGGa -3' miRNA: 3'- ugGCUCGUGAUGC---------AGUU-CUGA--GACCa -5' |
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28536 | 3' | -53.2 | NC_005946.1 | + | 7818 | 0.66 | 0.933303 |
Target: 5'- cCCGGGCACUcACGUCcGGugUUuucgcacguUGGg -3' miRNA: 3'- uGGCUCGUGA-UGCAGuUCugAG---------ACCa -5' |
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28536 | 3' | -53.2 | NC_005946.1 | + | 77064 | 0.66 | 0.921662 |
Target: 5'- cACCGAGUACgagACGgggggucUCAcGGGCUCUuGGUc -3' miRNA: 3'- -UGGCUCGUGa--UGC-------AGU-UCUGAGA-CCA- -5' |
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28536 | 3' | -53.2 | NC_005946.1 | + | 13594 | 0.67 | 0.903687 |
Target: 5'- gGCCGAGUACaGCGUaaaguacGACUacCUGGUg -3' miRNA: 3'- -UGGCUCGUGaUGCAguu----CUGA--GACCA- -5' |
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28536 | 3' | -53.2 | NC_005946.1 | + | 91616 | 0.67 | 0.888608 |
Target: 5'- gGCCGgcguacaGGCACUcuGCGUCGgacuuguAGACguagCUGGUa -3' miRNA: 3'- -UGGC-------UCGUGA--UGCAGU-------UCUGa---GACCA- -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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