miRNA: 3'- aGUU-UCUCGGG--CGGa--CaUGGUAGUCG- -5'
miRNA: 3'- aGUUucUCGGGCGGa-Ca---UGGUAGUCG- -5'
miRNA: 3'- aGUuuCuCGGGCGGa--CAuGGUAGUCG- -5'
miRNA: 3'- -AGUUUCuCGGgCGGa-----CAUGgu--AGUCG- -5'
miRNA: 3'- aguUUCUCG-GGCGGA--CA----------UGGUAguCG- -5'
Results 61 - 65 of 65 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 | |||||||
| 11100 | 3' | -52.9 | NC_002794.1 | + | 189840 | 0.66 | 0.985345 |
|
Target: 5'- aCAGcGGGGUCUcgGCCgcgGaGCCGUCGGCg -3' miRNA: 3'- aGUU-UCUCGGG--CGGa--CaUGGUAGUCG- -5' |
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| 11100 | 3' | -52.9 | NC_002794.1 | + | 189881 | 0.72 | 0.802869 |
|
Target: 5'- cCGAccGGCCCGCUcgGgcccGCCGUCAGCg -3' miRNA: 3'- aGUUucUCGGGCGGa-Ca---UGGUAGUCG- -5' |
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| 11100 | 3' | -52.9 | NC_002794.1 | + | 190005 | 0.69 | 0.932346 |
|
Target: 5'- cCAucG-GCCCGUCcggGU-CCAUCGGCg -3' miRNA: 3'- aGUuuCuCGGGCGGa--CAuGGUAGUCG- -5' |
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| 11100 | 3' | -52.9 | NC_002794.1 | + | 192674 | 0.66 | 0.985345 |
|
Target: 5'- cUCGAAGcGCCgGCCgccgucGUACgucuUCAGCa -3' miRNA: 3'- -AGUUUCuCGGgCGGa-----CAUGgu--AGUCG- -5' |
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| 11100 | 3' | -52.9 | NC_002794.1 | + | 194065 | 0.66 | 0.983525 |
|
Target: 5'- --cGAGAGCgCCGCCUucGUcgccgccaccGCCGUguGCc -3' miRNA: 3'- aguUUCUCG-GGCGGA--CA----------UGGUAguCG- -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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