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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
22441 | 5' | -52.8 | NC_005056.1 | + | 8316 | 0.66 | 0.694134 |
Target: 5'- uGGcgUCUguGCAGGccgggcgcuggugcaACCGGcGCACAGCa -3' miRNA: 3'- cCCuaAGG--CGUUC---------------UGGUCaCGUGUCG- -5' |
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22441 | 5' | -52.8 | NC_005056.1 | + | 5139 | 0.66 | 0.678039 |
Target: 5'- cGGGAgcguaaCCGau-GACgAGUcccGCACAGCg -3' miRNA: 3'- -CCCUaa----GGCguuCUGgUCA---CGUGUCG- -5' |
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22441 | 5' | -52.8 | NC_005056.1 | + | 18773 | 0.69 | 0.517143 |
Target: 5'- cGGAUgaUGCA--GCCGGUGCACAGa -3' miRNA: 3'- cCCUAagGCGUucUGGUCACGUGUCg -5' |
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22441 | 5' | -52.8 | NC_005056.1 | + | 1428 | 0.71 | 0.392379 |
Target: 5'- uGGcuaUCCGCAAGACCA-UGaccaGCAGCg -3' miRNA: 3'- cCCua-AGGCGUUCUGGUcACg---UGUCG- -5' |
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22441 | 5' | -52.8 | NC_005056.1 | + | 18173 | 1.14 | 0.000369 |
Target: 5'- aGGGAUUCCGCAAGACCAGUGCACAGCu -3' miRNA: 3'- -CCCUAAGGCGUUCUGGUCACGUGUCG- -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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