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miRNA: 3'- agGCGUUGg----UGCGCAGCG--GGUGCCUG- -5'
miRNA: 3'- -AGGCGUugGUGcGCA-GCGGgUGCCUG- -5'
miRNA: 3'- -AGGCGUUGGUGCGCAGCGGGUGCCUG- -5'
Results 41 - 43 of 43 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 | |||||||
| 22893 | 3' | -59.8 | NC_005137.2 | + | 96482 | 0.77 | 0.190083 |
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Target: 5'- -aCGCAACacgguGCGCGUCGUguCCACGGGCg -3' miRNA: 3'- agGCGUUGg----UGCGCAGCG--GGUGCCUG- -5' |
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| 22893 | 3' | -59.8 | NC_005137.2 | + | 95642 | 0.77 | 0.18548 |
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Target: 5'- uUCCGCGugCGC-CGUgCGCCgACGGGCa -3' miRNA: 3'- -AGGCGUugGUGcGCA-GCGGgUGCCUG- -5' |
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| 22893 | 3' | -59.8 | NC_005137.2 | + | 43028 | 1.1 | 0.000982 |
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Target: 5'- aUCCGCAACCACGCGUCGCCCACGGACg -3' miRNA: 3'- -AGGCGUUGGUGCGCAGCGGGUGCCUG- -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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