miRNA: 3'- -CAGCUCGcACUAGG-GA--CGCaUGAGGc -5'
miRNA: 3'- cAGCUCgCACUAGGGa---CGCA--------UGAGGc -5'
miRNA: 3'- cAGCUCgcACUaGGGACGCauGAGGC- -5'
miRNA: 3'- cAGCUCGCACUAGGG-----ACG-CAUG---AGGC- -5'
miRNA: 3'- -CAGCUCGCACUAGGGACGCAUGAGGC- -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 | |||||||
| 1500 | 3' | -55.9 | NC_001335.1 | + | 36801 | 0.66 | 0.679825 |
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Target: 5'- aGUCGGGCuUGAUCCgCUgaGCGaACUCUu -3' miRNA: 3'- -CAGCUCGcACUAGG-GA--CGCaUGAGGc -5' |
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| 1500 | 3' | -55.9 | NC_001335.1 | + | 798 | 0.66 | 0.647067 |
|
Target: 5'- aUCGAG-GUGAUUCCgacgGCGUguugggcgACUCCc -3' miRNA: 3'- cAGCUCgCACUAGGGa---CGCA--------UGAGGc -5' |
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| 1500 | 3' | -55.9 | NC_001335.1 | + | 10465 | 0.67 | 0.603243 |
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Target: 5'- aUCGAGguUGAgCCCUGCGgcUUCCGc -3' miRNA: 3'- cAGCUCgcACUaGGGACGCauGAGGC- -5' |
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| 1500 | 3' | -55.9 | NC_001335.1 | + | 9145 | 0.72 | 0.346837 |
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Target: 5'- cUCGGGCGUGAUCUCacuggUGCcGUACaggUCCGa -3' miRNA: 3'- cAGCUCGCACUAGGG-----ACG-CAUG---AGGC- -5' |
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| 1500 | 3' | -55.9 | NC_001335.1 | + | 34272 | 1.09 | 0.000815 |
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Target: 5'- cGUCGAGCGUGAUCCCUGCGUACUCCGa -3' miRNA: 3'- -CAGCUCGCACUAGGGACGCAUGAGGC- -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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