miRNA: 3'- -CGaaGGAUC-GCGCa---UGCGGGaCGGau -5'
miRNA: 3'- -CGA-AGGAuCGCGCAUG--CGgGACGGAU- -5'
miRNA: 3'- cgaaGGAUC-GCGCAUGCG-GGa---CGGAu -5'
miRNA: 3'- -CGAa---GGAUcgCGCa--UGCGGGACGGau -5'
miRNA: 3'- -CGAAGGAUCGCGCAUGCGGGACGGAU- -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 | |||||||
| 2626 | 3' | -57.3 | NC_001491.2 | + | 68905 | 0.66 | 0.837312 |
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Target: 5'- gGCggCCUGGcCGUGggcaACGCCC-GCCg- -3' miRNA: 3'- -CGaaGGAUC-GCGCa---UGCGGGaCGGau -5' |
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| 2626 | 3' | -57.3 | NC_001491.2 | + | 10320 | 0.67 | 0.784666 |
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Target: 5'- uGCUcUUCU-GCGCGUACugGUgCUGCCUGg -3' miRNA: 3'- -CGA-AGGAuCGCGCAUG--CGgGACGGAU- -5' |
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| 2626 | 3' | -57.3 | NC_001491.2 | + | 93566 | 0.67 | 0.775356 |
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Target: 5'- ---gUCUAGcCGCGUACGCgCCgaggGCCUc -3' miRNA: 3'- cgaaGGAUC-GCGCAUGCG-GGa---CGGAu -5' |
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| 2626 | 3' | -57.3 | NC_001491.2 | + | 121186 | 0.68 | 0.727057 |
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Target: 5'- aGCUgcagCCUGuaGUGgggACGCCUUGCCg- -3' miRNA: 3'- -CGAa---GGAUcgCGCa--UGCGGGACGGau -5' |
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| 2626 | 3' | -57.3 | NC_001491.2 | + | 146997 | 1.09 | 0.001927 |
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Target: 5'- cGCUUCCUAGCGCGUACGCCCUGCCUAu -3' miRNA: 3'- -CGAAGGAUCGCGCAUGCGGGACGGAU- -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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