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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 | |||||||
| 31691 | 3' | -48.2 | NC_006884.1 | + | 168987 | 0.66 | 0.999294 |
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Target: 5'- -gUUCUACCgcAUacaUGUUcUGGCGACCAc -3' miRNA: 3'- uaGAGAUGGauUA---ACGA-ACCGUUGGU- -5' |
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| 31691 | 3' | -48.2 | NC_006884.1 | + | 119972 | 0.67 | 0.997233 |
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Target: 5'- -aCUUUGCCUAAUU-C-UGGUGACCAu -3' miRNA: 3'- uaGAGAUGGAUUAAcGaACCGUUGGU- -5' |
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| 31691 | 3' | -48.2 | NC_006884.1 | + | 60581 | 0.68 | 0.99611 |
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Target: 5'- -cCUUUuCCUGGUucUGCUcuuuuaccUGGCAACCAa -3' miRNA: 3'- uaGAGAuGGAUUA--ACGA--------ACCGUUGGU- -5' |
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| 31691 | 3' | -48.2 | NC_006884.1 | + | 50420 | 0.7 | 0.985648 |
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Target: 5'- cUCUCUugCcGAUUGCUUuGCAACUu -3' miRNA: 3'- uAGAGAugGaUUAACGAAcCGUUGGu -5' |
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| 31691 | 3' | -48.2 | NC_006884.1 | + | 77314 | 0.7 | 0.981653 |
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Target: 5'- gAUCUCUACC-AGUUGCUcuUGGUggUgGa -3' miRNA: 3'- -UAGAGAUGGaUUAACGA--ACCGuuGgU- -5' |
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| 31691 | 3' | -48.2 | NC_006884.1 | + | 13470 | 0.72 | 0.957155 |
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Target: 5'- cAUCUCUACCUGuuccaaaguUUGCUUGaGUAcCCAu -3' miRNA: 3'- -UAGAGAUGGAUu--------AACGAAC-CGUuGGU- -5' |
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| 31691 | 3' | -48.2 | NC_006884.1 | + | 145422 | 0.81 | 0.58297 |
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Target: 5'- -aCUCUGCCUAuggUGCUguUGGCAAUCAg -3' miRNA: 3'- uaGAGAUGGAUua-ACGA--ACCGUUGGU- -5' |
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| 31691 | 3' | -48.2 | NC_006884.1 | + | 43494 | 1.07 | 0.018543 |
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Target: 5'- aAUCUCUACCUAAUUGCUUGGCAACCAu -3' miRNA: 3'- -UAGAGAUGGAUUAACGAACCGUUGGU- -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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