miRNA: 3'- ugUGCGGCGGUGGaaa------CGGGuCCaGC- -5'
miRNA: 3'- -UGUG-CGG-----CGGUGGaaa-CGGGUCCAGc -5'
miRNA: 3'- uGUGCGGCGG--------UGGa----AACGGGUCCAGc -5'
miRNA: 3'- uGugCGGC-GGUGgaAACGGGU-CCaGC- -5'
Results 21 - 24 of 24 are showing below:
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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 | |||||||
| 22243 | 3' | -59 | NC_005045.1 | + | 8695 | 0.66 | 0.434145 |
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Target: 5'- -gGCGCUGCCACCagcaccgagGCCCcGG-CGu -3' miRNA: 3'- ugUGCGGCGGUGGaaa------CGGGuCCaGC- -5' |
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| 22243 | 3' | -59 | NC_005045.1 | + | 38058 | 0.66 | 0.434145 |
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Target: 5'- gGCGCuGCCcucugGCCGCCgaucGUCUAGGUCu -3' miRNA: 3'- -UGUG-CGG-----CGGUGGaaa-CGGGUCCAGc -5' |
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| 22243 | 3' | -59 | NC_005045.1 | + | 11495 | 0.66 | 0.443823 |
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Target: 5'- cCACGCCGUCgagguugaACCagcggUUGUUCGGGUCu -3' miRNA: 3'- uGUGCGGCGG--------UGGa----AACGGGUCCAGc -5' |
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| 22243 | 3' | -59 | NC_005045.1 | + | 16757 | 0.66 | 0.443823 |
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Target: 5'- cCugGCCGaCCACg-UUGCCCAcGG-CGc -3' miRNA: 3'- uGugCGGC-GGUGgaAACGGGU-CCaGC- -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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