miRNA: 3'- -AUGCGGcUUCAUAUGUAGUAGUGGGU- -5'
miRNA: 3'- -AUGCGGCUUCauaUG---UAGUAGUGGGU- -5'
miRNA: 3'- aUGCGGCuuCAUAugUAgUAGUGGGU- -5'
miRNA: 3'- auGCG-GCUUCAUaUGUAguAgUGGGU- -5'
miRNA: 3'- auGCggCUUCAUAUGU----------AGUA--GUGGGU- -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 | |||||||
| 15342 | 5' | -49.5 | NC_003876.1 | + | 4142 | 0.94 | 0.001792 |
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Target: 5'- gUACGCC-AAGUAUACAUCAUCACCCAc -3' miRNA: 3'- -AUGCGGcUUCAUAUGUAGUAGUGGGU- -5' |
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| 15342 | 5' | -49.5 | NC_003876.1 | + | 4143 | 0.77 | 0.047052 |
|
Target: 5'- gUACGCUGAAGcggGCgagGUCGUCACCCGg -3' miRNA: 3'- -AUGCGGCUUCauaUG---UAGUAGUGGGU- -5' |
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| 15342 | 5' | -49.5 | NC_003876.1 | + | 1028 | 0.73 | 0.084498 |
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Target: 5'- cACGCCGguGUGUcaGUgGUCGCCCAu -3' miRNA: 3'- aUGCGGCuuCAUAugUAgUAGUGGGU- -5' |
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| 15342 | 5' | -49.5 | NC_003876.1 | + | 4645 | 0.66 | 0.300866 |
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Target: 5'- -cCGCuCGAAGUGaACGUguUgACCCAa -3' miRNA: 3'- auGCG-GCUUCAUaUGUAguAgUGGGU- -5' |
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| 15342 | 5' | -49.5 | NC_003876.1 | + | 2996 | 0.66 | 0.310447 |
|
Target: 5'- -uCGuuGAGGUAUACGuucacuuuauUCAUagCGCCCGg -3' miRNA: 3'- auGCggCUUCAUAUGU----------AGUA--GUGGGU- -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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