miRNA: 3'- -CCUGCGAG----AGGaCGUuCAGGUGc-UGC- -5'
miRNA: 3'- cCUGCGAgaGGa----CGUUCAGGUGCUGC- -5'
miRNA: 3'- ccuGCGAGa----GGACguuCAGGUGCUGC- -5'
miRNA: 3'- -CCUGCGAGa----GGACGU---------------UCAGGUGcUGC- -5'
Results 21 - 24 of 24 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 | |||||||
| 18282 | 3' | -54.9 | NC_004681.1 | + | 59621 | 0.72 | 0.503357 |
|
Target: 5'- aGGGCGCUCgacaUCCgGCAcGUCCACaaGCGg -3' miRNA: 3'- -CCUGCGAG----AGGaCGUuCAGGUGc-UGC- -5' |
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| 18282 | 3' | -54.9 | NC_004681.1 | + | 62054 | 0.73 | 0.453988 |
|
Target: 5'- uGACGCUg-CCgcccgGCGAGUUCAUGACGa -3' miRNA: 3'- cCUGCGAgaGGa----CGUUCAGGUGCUGC- -5' |
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| 18282 | 3' | -54.9 | NC_004681.1 | + | 63175 | 0.69 | 0.661388 |
|
Target: 5'- --cCGCUCgacacCCUGau-GUCCGCGGCGg -3' miRNA: 3'- ccuGCGAGa----GGACguuCAGGUGCUGC- -5' |
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| 18282 | 3' | -54.9 | NC_004681.1 | + | 74819 | 0.66 | 0.816427 |
|
Target: 5'- cGGAUGCUCcagugCUUGCAagcguugcucuaugaGGUCUACaGCGg -3' miRNA: 3'- -CCUGCGAGa----GGACGU---------------UCAGGUGcUGC- -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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