miRNA: 3'- uUAGCGGU---------UCGUCUAGCU-CUGCUgGc -5'
miRNA: 3'- -UUAGCGGUUCGUCUAGCuCU--GCugGC- -5'
miRNA: 3'- uuaGCGGUU-CGUCuAGCUCUGCUGGC- -5'
miRNA: 3'- uuagCGGUUCGUCUAGC---UCUGCUGgC- -5'
miRNA: 3'- -UUAGCGGUUCGUCUAGCUCUGCUGGC- -5'
Results 41 - 45 of 45 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 | |||||||
| 28140 | 5' | -53.6 | NC_005887.1 | + | 16265 | 0.73 | 0.342373 |
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Target: 5'- cGUCGCCGagcugaugcAGCAGAUCGAcGAUGAgCa -3' miRNA: 3'- uUAGCGGU---------UCGUCUAGCU-CUGCUgGc -5' |
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| 28140 | 5' | -53.6 | NC_005887.1 | + | 26304 | 0.75 | 0.26465 |
|
Target: 5'- aGAUCGUCGAGCGGAUCG-GAccCGugCGc -3' miRNA: 3'- -UUAGCGGUUCGUCUAGCuCU--GCugGC- -5' |
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| 28140 | 5' | -53.6 | NC_005887.1 | + | 16384 | 0.77 | 0.190972 |
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Target: 5'- --gCGUCAAuGCAG-UCGAGACGGCCGc -3' miRNA: 3'- uuaGCGGUU-CGUCuAGCUCUGCUGGC- -5' |
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| 28140 | 5' | -53.6 | NC_005887.1 | + | 16913 | 0.79 | 0.128302 |
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Target: 5'- ---aGCCGAGCAGAUCGgcaAGACGACgGg -3' miRNA: 3'- uuagCGGUUCGUCUAGC---UCUGCUGgC- -5' |
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| 28140 | 5' | -53.6 | NC_005887.1 | + | 16603 | 1.07 | 0.001354 |
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Target: 5'- aAAUCGCCAAGCAGAUCGAGACGACCGa -3' miRNA: 3'- -UUAGCGGUUCGUCUAGCUCUGCUGGC- -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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