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miRNA: 3'- uCC-CG-CCCCCUC--------UGUUGGCAacgUGC- -5'
miRNA: 3'- uCC--CGCCCCCUCUgUU---GGCAAC-GUGC- -5'
miRNA: 3'- -UCCCGCCCCCUCUGUUGGCAACGUGC- -5'
Results 1 - 3 of 3 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio#
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P value |
| Predicted miRNA align pattern | |||||||
| 30312 | 5' | -59 | NC_006367.1 | + | 2544 | 0.67 | 0.065421 |
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Target: 5'- cGGaGCaGGGGGAGccuucgggGCAACCGUga-GCGa -3' miRNA: 3'- uCC-CG-CCCCCUC--------UGUUGGCAacgUGC- -5' |
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| 30312 | 5' | -59 | NC_006367.1 | + | 1130 | 0.7 | 0.035473 |
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Target: 5'- cGGuuGCGGGGGAGGgAAgcuCUGUUGcCACGg -3' miRNA: 3'- uCC--CGCCCCCUCUgUU---GGCAAC-GUGC- -5' |
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| 30312 | 5' | -59 | NC_006367.1 | + | 2424 | 1.07 | 0.000015 |
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Target: 5'- cAGGGCGGGGGAGACAACCGUUGCACGc -3' miRNA: 3'- -UCCCGCCCCCUCUGUUGGCAACGUGC- -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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