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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 2136 | 3' | -52.7 | NC_001362.1 | + | 166 | 1.14 | 0.000056 |
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Target: 5'- cGGACGAGCCCCCAAAUGAAAGACCCCc -3' miRNA: 3'- -CCUGCUCGGGGGUUUACUUUCUGGGG- -5' |
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| 2136 | 3' | -52.7 | NC_001362.1 | + | 1145 | 0.68 | 0.226126 |
|
Target: 5'- cGGCGAuagcggagaagugGCCCCUAca-GAAGGAgCCCCu -3' miRNA: 3'- cCUGCU-------------CGGGGGUuuaCUUUCU-GGGG- -5' |
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| 2136 | 3' | -52.7 | NC_001362.1 | + | 2153 | 0.67 | 0.255986 |
|
Target: 5'- uGGGCuaGAGauugCCCCAAGaagccaaGAGGACCCCg -3' miRNA: 3'- -CCUG--CUCg---GGGGUUUac-----UUUCUGGGG- -5' |
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| 2136 | 3' | -52.7 | NC_001362.1 | + | 2572 | 0.73 | 0.109046 |
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Target: 5'- gGGAC-AGCCCCugCAAGUGcu-GACCCUa -3' miRNA: 3'- -CCUGcUCGGGG--GUUUACuuuCUGGGG- -5' |
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| 2136 | 3' | -52.7 | NC_001362.1 | + | 5370 | 0.7 | 0.166052 |
|
Target: 5'- cGcCGGGCCCCCA--UGGucucACCCCa -3' miRNA: 3'- cCuGCUCGGGGGUuuACUuuc-UGGGG- -5' |
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| 2136 | 3' | -52.7 | NC_001362.1 | + | 6066 | 0.68 | 0.233835 |
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Target: 5'- gGGGCcugauacucuAGCCCCC-AGUGggGcGGCCCa -3' miRNA: 3'- -CCUGc---------UCGGGGGuUUACuuU-CUGGGg -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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