miRNA: 3'- -CCCGAAAAAAaCAUAGACuuAGaucu -5'
miRNA: 3'- -CCCGAAAAAAacaUAGACUUagaucu -5'
miRNA: 3'- -CCCGAAAaaaa---CAUAGACUU-AGaucu -5'
miRNA: 3'- cCCGAaaaAAACaUAGACUUAGAUCU- -5'
miRNA: 3'- -CCCGAAAAAAACAUAGACUUAGAUCU- -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 | |||||||
| 22533 | 5' | -39.9 | NC_005083.1 | + | 155870 | 0.69 | 1 |
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Target: 5'- gGGGCUUUUUU-GUGUCUG--UCa--- -3' miRNA: 3'- -CCCGAAAAAAaCAUAGACuuAGaucu -5' |
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| 22533 | 5' | -39.9 | NC_005083.1 | + | 107022 | 0.66 | 1 |
|
Target: 5'- gGGGCUUUUUUag-GUCUGAAg----- -3' miRNA: 3'- -CCCGAAAAAAacaUAGACUUagaucu -5' |
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| 22533 | 5' | -39.9 | NC_005083.1 | + | 238422 | 0.67 | 1 |
|
Target: 5'- uGGGCUUUgccuaucGUGUCUGAAgUCa--- -3' miRNA: 3'- -CCCGAAAaaaa---CAUAGACUU-AGaucu -5' |
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| 22533 | 5' | -39.9 | NC_005083.1 | + | 8300 | 0.8 | 0.9987 |
|
Target: 5'- cGGCU---UUUGaAUCUGAAUCUGGAu -3' miRNA: 3'- cCCGAaaaAAACaUAGACUUAGAUCU- -5' |
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| 22533 | 5' | -39.9 | NC_005083.1 | + | 184147 | 1.16 | 0.086932 |
|
Target: 5'- gGGGCUUUUUUUGUAUCUGAAUCUAGAg -3' miRNA: 3'- -CCCGAAAAAAACAUAGACUUAGAUCU- -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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