miRNA: 3'- -CUUGGUGUCCCGGCUACGUUACUGGC- -5'
miRNA: 3'- cUUGGUGUC-CCGgCUACG-UU-----ACUGGC- -5'
miRNA: 3'- cUUG-GUGUCCCg--GCUACGUuACUGGC- -5'
miRNA: 3'- -CUUGGUgUCCCGGcUACGUuaCuGGC- -5'
miRNA: 3'- cUUGGugU---CCCGGCUaCGUuaCUGGC- -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 |
| Predicted miRNA align pattern | |||||||
| 1095 | 5' | -54.4 | NC_000929.1 | + | 29356 | 1.09 | 0.000667 |
|
Target: 5'- gGAACCACAGGGCCGAUGCAAUGACCGa -3' miRNA: 3'- -CUUGGUGUCCCGGCUACGUUACUGGC- -5' |
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| 1095 | 5' | -54.4 | NC_000929.1 | + | 24660 | 0.7 | 0.380439 |
|
Target: 5'- aAAUCACAGcGGCgGAUGCcAAccugcUGACCGg -3' miRNA: 3'- cUUGGUGUC-CCGgCUACG-UU-----ACUGGC- -5' |
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| 1095 | 5' | -54.4 | NC_000929.1 | + | 20774 | 0.68 | 0.523172 |
|
Target: 5'- cAACuUACAGGGacaCGGUGCGcUGGCUGg -3' miRNA: 3'- cUUG-GUGUCCCg--GCUACGUuACUGGC- -5' |
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| 1095 | 5' | -54.4 | NC_000929.1 | + | 24576 | 0.67 | 0.590522 |
|
Target: 5'- aGGAUCAgGGGGCC-AUGCAcgG-CUGg -3' miRNA: 3'- -CUUGGUgUCCCGGcUACGUuaCuGGC- -5' |
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| 1095 | 5' | -54.4 | NC_000929.1 | + | 13089 | 0.66 | 0.613373 |
|
Target: 5'- uGGCCugAcguGGGCCGAaGCA--GGCCGc -3' miRNA: 3'- cUUGGugU---CCCGGCUaCGUuaCUGGC- -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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