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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 32054 | 5' | -43.8 | NC_006998.1 | + | 121929 | 1.04 | 0.088887 |
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Target: 5'- aAUGAAGAUCUAUUUCCAGAUGAUGAUu -3' miRNA: 3'- -UACUUCUAGAUAAAGGUCUACUACUA- -5' |
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| 32054 | 5' | -43.8 | NC_006998.1 | + | 41427 | 0.76 | 0.98628 |
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Target: 5'- -cGAAGAUCUGUggCCAGcgGggGAUa -3' miRNA: 3'- uaCUUCUAGAUAaaGGUCuaCuaCUA- -5' |
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| 32054 | 5' | -43.8 | NC_006998.1 | + | 29821 | 0.71 | 0.999416 |
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Target: 5'- uAUGAGGAUgCUGUUUUUuacuuuguGGAUGAUGAUa -3' miRNA: 3'- -UACUUCUA-GAUAAAGG--------UCUACUACUA- -5' |
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| 32054 | 5' | -43.8 | NC_006998.1 | + | 101762 | 0.69 | 0.999964 |
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Target: 5'- -aGAGGAUCUAUUagauguguauaauucUCCugaaacGAUGAUGGUa -3' miRNA: 3'- uaCUUCUAGAUAA---------------AGGu-----CUACUACUA- -5' |
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| 32054 | 5' | -43.8 | NC_006998.1 | + | 162837 | 0.67 | 0.999999 |
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Target: 5'- -cGGAGucucGUCUGUUguggauucUCCAGAUGAUGc- -3' miRNA: 3'- uaCUUC----UAGAUAA--------AGGUCUACUACua -5' |
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| 32054 | 5' | -43.8 | NC_006998.1 | + | 28015 | 0.71 | 0.999779 |
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Target: 5'- uGUGGAGcAUCUAUUaauauuacaCCGGAUGAUGGa -3' miRNA: 3'- -UACUUC-UAGAUAAa--------GGUCUACUACUa -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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