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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 | |||||||
| 31762 | 5' | -55.7 | NC_006938.1 | + | 34559 | 0.66 | 0.733858 |
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Target: 5'- uCUCCA-GAUCUCCUguaUCUGUCGGGc -3' miRNA: 3'- -GAGGUcCUAGAGGAgc-AGGCAGUCUa -5' |
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| 31762 | 5' | -55.7 | NC_006938.1 | + | 43410 | 0.66 | 0.729672 |
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Target: 5'- aUCCGGGAgaccuggugcgCCUCGUCCcagcgcugguuGUCGGAg -3' miRNA: 3'- gAGGUCCUaga--------GGAGCAGG-----------CAGUCUa -5' |
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| 31762 | 5' | -55.7 | NC_006938.1 | + | 25699 | 0.68 | 0.59358 |
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Target: 5'- uCUCCuGGAUCUCCUgGagCCagagGUCAGGg -3' miRNA: 3'- -GAGGuCCUAGAGGAgCa-GG----CAGUCUa -5' |
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| 31762 | 5' | -55.7 | NC_006938.1 | + | 23427 | 0.73 | 0.332608 |
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Target: 5'- uCUCCGGaGAgCUCCUCGaccuggcCCGUCAGAUc -3' miRNA: 3'- -GAGGUC-CUaGAGGAGCa------GGCAGUCUA- -5' |
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| 31762 | 5' | -55.7 | NC_006938.1 | + | 36714 | 0.75 | 0.240465 |
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Target: 5'- -gCCAGGAUCUCgUCGUCUGUCu--- -3' miRNA: 3'- gaGGUCCUAGAGgAGCAGGCAGucua -5' |
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| 31762 | 5' | -55.7 | NC_006938.1 | + | 22999 | 1.05 | 0.001945 |
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Target: 5'- cCUCCAGGAUCUCCUCGUCCGUCAGAUc -3' miRNA: 3'- -GAGGUCCUAGAGGAGCAGGCAGUCUA- -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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