miRNA: 3'- gugcAUGUUaacCCAGCAGCUCaUGC- -5'
miRNA: 3'- gUGCAUGUUaaCCCaGCAGCUC--AUGc -5'
miRNA: 3'- gUGCaUGUU---AACCCAGCAGCu--CAUgc -5'
miRNA: 3'- gugCAUGUUAaccCAGCAGCUCAUGC- -5'
miRNA: 3'- -GUGCAUGUUAACCCAGCAGCUCAUGC- -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 | |||||||
| 8495 | 3' | -48.8 | NC_002169.1 | + | 96326 | 0.66 | 0.99912 |
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Target: 5'- ---uUACAAgucGGUCGUCGAGaGCGa -3' miRNA: 3'- gugcAUGUUaacCCAGCAGCUCaUGC- -5' |
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| 8495 | 3' | -48.8 | NC_002169.1 | + | 112472 | 0.66 | 0.99869 |
|
Target: 5'- aAUGUGCAA--GGG-CGUCGAGauUGCa -3' miRNA: 3'- gUGCAUGUUaaCCCaGCAGCUC--AUGc -5' |
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| 8495 | 3' | -48.8 | NC_002169.1 | + | 22773 | 0.68 | 0.995549 |
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Target: 5'- gGCG-ACAGacuUUGGGUCGUCGuauGUGa- -3' miRNA: 3'- gUGCaUGUU---AACCCAGCAGCu--CAUgc -5' |
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| 8495 | 3' | -48.8 | NC_002169.1 | + | 26717 | 0.69 | 0.984506 |
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Target: 5'- --aGUACAAUcu-GUCGUCGAGUAUGc -3' miRNA: 3'- gugCAUGUUAaccCAGCAGCUCAUGC- -5' |
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| 8495 | 3' | -48.8 | NC_002169.1 | + | 35036 | 1.11 | 0.011961 |
|
Target: 5'- gCACGUACAAUUGGGUCGUCGAGUACGg -3' miRNA: 3'- -GUGCAUGUUAACCCAGCAGCUCAUGC- -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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