miRNA: 3'- aCGCGCAGCGacuCUAGGaacuaGCG- -5'
miRNA: 3'- -ACGCGCa-----GCGACUcuaGGAaCUAGCG- -5'
miRNA: 3'- -ACGCGCa---------GCGaCuCUAGGA----ACUAGCG- -5'
Results 21 - 23 of 23 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 28007 | 5' | -53.5 | NC_005887.1 | + | 5502 | 0.66 | 0.745276 |
|
Target: 5'- cGCGCGUCGC---GAUCCag---CGCa -3' miRNA: 3'- aCGCGCAGCGacuCUAGGaacuaGCG- -5' |
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| 28007 | 5' | -53.5 | NC_005887.1 | + | 4633 | 0.68 | 0.599827 |
|
Target: 5'- cUGCGCGaauacgCGCUGAa--CCU-GAUCGCc -3' miRNA: 3'- -ACGCGCa-----GCGACUcuaGGAaCUAGCG- -5' |
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| 28007 | 5' | -53.5 | NC_005887.1 | + | 4404 | 0.66 | 0.712554 |
|
Target: 5'- aUGCGCGccggcgaaggCGCgGcGAUCCUgcaaUGGUUGCa -3' miRNA: 3'- -ACGCGCa---------GCGaCuCUAGGA----ACUAGCG- -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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