miRNA: 3'- -CC-GUCGCCGuuUUCauaGUACCGGCU- -5'
miRNA: 3'- cCGUCGCCGUUuuCAUAGUacCGGCU- -5'
miRNA: 3'- -CCGUCGCCGUuuUCAUa--GUa---CCGgCU- -5'
miRNA: 3'- -CCGUCGCCG---UUUUCauagUACCGGCU- -5'
miRNA: 3'- -CCGUCGCCGUUUUCAUAGUACCGGCU- -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 | |||||||
| 3473 | 3' | -51.8 | NC_001609.1 | + | 6913 | 0.69 | 0.290336 |
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Target: 5'- cGGcCAGUGGCc-GAGcg-CAUGGCUGAc -3' miRNA: 3'- -CC-GUCGCCGuuUUCauaGUACCGGCU- -5' |
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| 3473 | 3' | -51.8 | NC_001609.1 | + | 5175 | 0.73 | 0.138688 |
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Target: 5'- cGCAGCGGCGGc-GUGUCAc-GCCGAc -3' miRNA: 3'- cCGUCGCCGUUuuCAUAGUacCGGCU- -5' |
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| 3473 | 3' | -51.8 | NC_001609.1 | + | 8963 | 0.76 | 0.093809 |
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Target: 5'- cGGCAGCGGCAucAGUGgcgCAcuggGGCgGGa -3' miRNA: 3'- -CCGUCGCCGUuuUCAUa--GUa---CCGgCU- -5' |
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| 3473 | 3' | -51.8 | NC_001609.1 | + | 7637 | 0.78 | 0.06507 |
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Target: 5'- cGGCAGCGGUacuGAAAGaa--AUGGCCGGa -3' miRNA: 3'- -CCGUCGCCG---UUUUCauagUACCGGCU- -5' |
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| 3473 | 3' | -51.8 | NC_001609.1 | + | 5467 | 1.12 | 0.000132 |
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Target: 5'- cGGCAGCGGCAAAAGUAUCAUGGCCGAa -3' miRNA: 3'- -CCGUCGCCGUUUUCAUAGUACCGGCU- -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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