miRNA: 3'- uCGACa--GC----GAGGUCGUGGACCA-------UCCG- -5'
miRNA: 3'- -UCGACaGCGa-GGUCGUggACCAUCCG- -5'
miRNA: 3'- -UCGa----CAGCGAg--GUCGUGGACCAUC-CG- -5'
miRNA: 3'- -UCGACaGCGAGGUCGUGGACCAUccg -5'
miRNA: 3'- -UCGACAGCGAGGUCGUGGACCAUCCG- -5'
Results 21 - 25 of 25 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 | |||||||
| 30495 | 3' | -57.8 | NC_006548.1 | + | 25717 | 0.76 | 0.098545 |
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Target: 5'- uGCUGgagCGgcaaCUCCAGUACCUGGUgccgaacAGGCa -3' miRNA: 3'- uCGACa--GC----GAGGUCGUGGACCA-------UCCG- -5' |
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| 30495 | 3' | -57.8 | NC_006548.1 | + | 25360 | 0.77 | 0.080615 |
|
Target: 5'- gAGCUG-CGCgaCCAGCGaaUGGUGGGCg -3' miRNA: 3'- -UCGACaGCGa-GGUCGUggACCAUCCG- -5' |
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| 30495 | 3' | -57.8 | NC_006548.1 | + | 22877 | 0.78 | 0.071694 |
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Target: 5'- cAGCgaaccGUCGCUgagCAGCACCUGGUAGcGCc -3' miRNA: 3'- -UCGa----CAGCGAg--GUCGUGGACCAUC-CG- -5' |
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| 30495 | 3' | -57.8 | NC_006548.1 | + | 25770 | 0.83 | 0.029346 |
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Target: 5'- gAGUUGcCGCUCCAGCACCUGGUGc-- -3' miRNA: 3'- -UCGACaGCGAGGUCGUGGACCAUccg -5' |
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| 30495 | 3' | -57.8 | NC_006548.1 | + | 2218 | 1.12 | 0.000182 |
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Target: 5'- cAGCUGUCGCUCCAGCACCUGGUAGGCg -3' miRNA: 3'- -UCGACAGCGAGGUCGUGGACCAUCCG- -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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