miRNA: 3'- -CgCaCAGCGUGUUuuuCG-GCGGCAUU- -5'
miRNA: 3'- -CGcACAGCGUGUUUUUCGGC---GGCAUU- -5'
miRNA: 3'- -CGCa----CAGCGUGUUuUUCG---GCGGCAUu -5'
miRNA: 3'- -CGCaCAGCGUGUUUuUCGgCGGCauu -5'
miRNA: 3'- -CGCACAGCGUGUUUUUCGGCGGCAUU- -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 | |||||||
| 33153 | 3' | -51.3 | NC_007497.1 | + | 17782 | 0.72 | 0.522296 |
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Target: 5'- cGgGcGUCGCACAGuc-GCgCGCCGUGAa -3' miRNA: 3'- -CgCaCAGCGUGUUuuuCG-GCGGCAUU- -5' |
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| 33153 | 3' | -51.3 | NC_007497.1 | + | 18847 | 0.72 | 0.522296 |
|
Target: 5'- gGC-UGUUGCGCAAAAGGUCGagaCCGUAGc -3' miRNA: 3'- -CGcACAGCGUGUUUUUCGGC---GGCAUU- -5' |
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| 33153 | 3' | -51.3 | NC_007497.1 | + | 27096 | 0.72 | 0.500232 |
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Target: 5'- gGCGauuccGUCGCGCGAuGAGCucgCGCCGUAc -3' miRNA: 3'- -CGCa----CAGCGUGUUuUUCG---GCGGCAUu -5' |
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| 33153 | 3' | -51.3 | NC_007497.1 | + | 10204 | 0.76 | 0.300715 |
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Target: 5'- cGCG-GUCGCGCAAAcGGCgGCCGc-- -3' miRNA: 3'- -CGCaCAGCGUGUUUuUCGgCGGCauu -5' |
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| 33153 | 3' | -51.3 | NC_007497.1 | + | 29993 | 1.09 | 0.001732 |
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Target: 5'- aGCGUGUCGCACAAAAAGCCGCCGUAAg -3' miRNA: 3'- -CGCACAGCGUGUUUUUCGGCGGCAUU- -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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