miRNA: 3'- uC-GCCGGGA---GGAGCUGguACGG------------UGCC- -5'
miRNA: 3'- -UCGC-CGGGAGGAGCUGgu---ACGGUGCc -5'
miRNA: 3'- -UCGCCgGGAGGAGCUGguaCGGUGCC- -5'
miRNA: 3'- -UCGCCGGGAGGAGCuGGUa------CGGU-GCc -5'
miRNA: 3'- -UCGCCGGGAGGAGCUGGUACGGUGCC- -5'
Results 21 - 25 of 25 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 | |||||||
| 22274 | 5' | -60.9 | NC_005045.1 | + | 24403 | 0.72 | 0.143838 |
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Target: 5'- cGaCGGCCCUuggCCUCGACguUGCCcaggcgauccagGCGGa -3' miRNA: 3'- uC-GCCGGGA---GGAGCUGguACGG------------UGCC- -5' |
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| 22274 | 5' | -60.9 | NC_005045.1 | + | 16684 | 0.72 | 0.139998 |
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Target: 5'- cAGCGcGCCCUUCUUGGCguacuUGCCGCGu -3' miRNA: 3'- -UCGC-CGGGAGGAGCUGgu---ACGGUGCc -5' |
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| 22274 | 5' | -60.9 | NC_005045.1 | + | 32413 | 0.73 | 0.1326 |
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Target: 5'- cGGCGG-CCUCCUCGGCg--GUCAUGGc -3' miRNA: 3'- -UCGCCgGGAGGAGCUGguaCGGUGCC- -5' |
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| 22274 | 5' | -60.9 | NC_005045.1 | + | 22337 | 0.74 | 0.106482 |
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Target: 5'- cAGCGGCCCUCCUUGcCCAcacgcacGCCGuCGa -3' miRNA: 3'- -UCGCCGGGAGGAGCuGGUa------CGGU-GCc -5' |
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| 22274 | 5' | -60.9 | NC_005045.1 | + | 29869 | 1.1 | 0.000176 |
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Target: 5'- cAGCGGCCCUCCUCGACCAUGCCACGGg -3' miRNA: 3'- -UCGCCGGGAGGAGCUGGUACGGUGCC- -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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