miRNA: 3'- -GUGCCugUGGCGGuGCG-C-GGCGACCU- -5'
miRNA: 3'- guGCCUGUg---GCGGUGCGCggCGACCU- -5'
miRNA: 3'- -GugCC---------UGUGGCGGUGC-GCG---GCGACCU- -5'
miRNA: 3'- -GUGCC----UGUGGCGGUGCGCGGCGACcu -5'
miRNA: 3'- -GUGCCUGUGGCGGUGCGCGGCGACCU- -5'
Results 1 - 5 of 5 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 | |||||||
| 9437 | 5' | -62.1 | NC_002531.1 | + | 36875 | 0.66 | 0.61524 |
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Target: 5'- cUAUGGuaGCCGCC-UGCuGaCCGCUGGAa -3' miRNA: 3'- -GUGCCugUGGCGGuGCG-C-GGCGACCU- -5' |
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| 9437 | 5' | -62.1 | NC_002531.1 | + | 90239 | 0.66 | 0.595496 |
|
Target: 5'- -cUGGACGaacgCGCCGCGCG--GCUGGAu -3' miRNA: 3'- guGCCUGUg---GCGGUGCGCggCGACCU- -5' |
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| 9437 | 5' | -62.1 | NC_002531.1 | + | 69335 | 0.69 | 0.436084 |
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Target: 5'- uCugGGgguugcagaGCGCCGCCACGaUGUguuUGCUGGAc -3' miRNA: 3'- -GugCC---------UGUGGCGGUGC-GCG---GCGACCU- -5' |
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| 9437 | 5' | -62.1 | NC_002531.1 | + | 25353 | 0.8 | 0.085597 |
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Target: 5'- aCAUGGucugGCACUGCCACGCGCUGCUGu- -3' miRNA: 3'- -GUGCC----UGUGGCGGUGCGCGGCGACcu -5' |
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| 9437 | 5' | -62.1 | NC_002531.1 | + | 58107 | 1.07 | 0.000923 |
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Target: 5'- cCACGGACACCGCCACGCGCCGCUGGAc -3' miRNA: 3'- -GUGCCUGUGGCGGUGCGCGGCGACCU- -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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