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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 30852 | 5' | -55.2 | NC_006552.1 | + | 38797 | 0.66 | 0.75024 |
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Target: 5'- gCCGUauGGaAUGCCAgUGGCAU-CCu -3' miRNA: 3'- aGGCAcuCC-UACGGUgACCGUAaGGu -5' |
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| 30852 | 5' | -55.2 | NC_006552.1 | + | 37456 | 0.66 | 0.736698 |
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Target: 5'- uUCCGUGAGGAauucaguccaaaaUGCCAUcacuauacgcagGGCcguuggccaAUUCCAc -3' miRNA: 3'- -AGGCACUCCU-------------ACGGUGa-----------CCG---------UAAGGU- -5' |
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| 30852 | 5' | -55.2 | NC_006552.1 | + | 33215 | 0.66 | 0.72933 |
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Target: 5'- gCCGgccAGGAUGCCGCgcuGCAUgucuUCCGg -3' miRNA: 3'- aGGCac-UCCUACGGUGac-CGUA----AGGU- -5' |
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| 30852 | 5' | -55.2 | NC_006552.1 | + | 63839 | 0.67 | 0.68644 |
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Target: 5'- gCCGgcgGAGGA--UCACUGGCuucgUCCGu -3' miRNA: 3'- aGGCa--CUCCUacGGUGACCGua--AGGU- -5' |
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| 30852 | 5' | -55.2 | NC_006552.1 | + | 38454 | 0.67 | 0.653688 |
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Target: 5'- gCUGUuccuGGAUGCCGCUGGUgg-CCGu -3' miRNA: 3'- aGGCAcu--CCUACGGUGACCGuaaGGU- -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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