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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 | |||||||
| 31410 | 5' | -50 | NC_006634.1 | + | 10212 | 0.68 | 0.473826 |
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Target: 5'- -gGUCUGAUGuuuGGcacaUGGCCAGAUAg -3' miRNA: 3'- gaUAGACUGCu--CUag--ACCGGUCUAUa -5' |
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| 31410 | 5' | -50 | NC_006634.1 | + | 13282 | 0.69 | 0.395713 |
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Target: 5'- -gAUCUGGCcAGAUCuguuuauauaUGGCCAGAUc- -3' miRNA: 3'- gaUAGACUGcUCUAG----------ACCGGUCUAua -5' |
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| 31410 | 5' | -50 | NC_006634.1 | + | 12981 | 0.7 | 0.374966 |
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Target: 5'- -aGUCUGGCcAGAUCuguuuauauaUGGCCAGAUc- -3' miRNA: 3'- gaUAGACUGcUCUAG----------ACCGGUCUAua -5' |
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| 31410 | 5' | -50 | NC_006634.1 | + | 13018 | 0.72 | 0.282668 |
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Target: 5'- aUAUCUGGCcAGAUCUcGUCAGAUAg -3' miRNA: 3'- gAUAGACUGcUCUAGAcCGGUCUAUa -5' |
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| 31410 | 5' | -50 | NC_006634.1 | + | 12934 | 0.73 | 0.243704 |
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Target: 5'- -gAUCUGGCcauauauaaacAGAUCUGGCCAGAUc- -3' miRNA: 3'- gaUAGACUGc----------UCUAGACCGGUCUAua -5' |
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| 31410 | 5' | -50 | NC_006634.1 | + | 13329 | 0.73 | 0.243704 |
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Target: 5'- -gAUCUGGCcauauauaaacAGAUCUGGCCAGAUc- -3' miRNA: 3'- gaUAGACUGc----------UCUAGACCGGUCUAua -5' |
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| 31410 | 5' | -50 | NC_006634.1 | + | 12978 | 1.07 | 0.000768 |
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Target: 5'- uCUAUCUGACGAGAUCUGGCCAGAUAUa -3' miRNA: 3'- -GAUAGACUGCUCUAGACCGGUCUAUA- -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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