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miRNA: 3'- -CGGUuaCGGC-GCUUCGugGGCaaGCC- -5'
miRNA: 3'- -CGGUu-ACG-GCGC-UUCGugGGCaAGCC- -5'
miRNA: 3'- -CGGUUACggCGCUUCGUGG-GC---------AAGC-C- -5'
miRNA: 3'- -CGGUUa----CGGCGCU-UCGUGG-GCAAGCC- -5'
miRNA: 3'- -CGGUUACGGCGCUUCGUGGGCAAGCC- -5'
Results 41 - 45 of 45 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 | |||||||
| 33087 | 5' | -54.9 | NC_007497.1 | + | 5887 | 0.76 | 0.215895 |
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Target: 5'- cGUCA--GCCGaCGAAGCugCCGggCGGa -3' miRNA: 3'- -CGGUuaCGGC-GCUUCGugGGCaaGCC- -5' |
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| 33087 | 5' | -54.9 | NC_007497.1 | + | 10096 | 0.76 | 0.199227 |
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Target: 5'- aGCCAucUGCgCGCGcAGGCugCCGcUCGGa -3' miRNA: 3'- -CGGUu-ACG-GCGC-UUCGugGGCaAGCC- -5' |
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| 33087 | 5' | -54.9 | NC_007497.1 | + | 41075 | 0.77 | 0.164647 |
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Target: 5'- cGCCGAUGuuGCGAAGCGCCgCGcugauccgcUUCGcGg -3' miRNA: 3'- -CGGUUACggCGCUUCGUGG-GC---------AAGC-C- -5' |
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| 33087 | 5' | -54.9 | NC_007497.1 | + | 34632 | 0.8 | 0.11126 |
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Target: 5'- aGCCGGcggucGCCGCGGuGGCGCCuCGUUCGGc -3' miRNA: 3'- -CGGUUa----CGGCGCU-UCGUGG-GCAAGCC- -5' |
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| 33087 | 5' | -54.9 | NC_007497.1 | + | 39687 | 1.12 | 0.00064 |
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Target: 5'- uGCCAAUGCCGCGAAGCACCCGUUCGGc -3' miRNA: 3'- -CGGUUACGGCGCUUCGUGGGCAAGCC- -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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