miRNA: 3'- -UAGUCACAGA--------CaGCGUUUGGGACaau -5'
miRNA: 3'- -UAGUCACAGa-----CAGCGUUU------GGGaCAau -5'
miRNA: 3'- uagUCACAGACAgCGUUUGgGACAau -5'
miRNA: 3'- -UAGUCACAGACaGCGUUUGGgacaau -5'
miRNA: 3'- -UAGUCACAGACAGCGUUUGGGACAAU- -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 | |||||||
| 13257 | 3' | -50.6 | NC_003401.1 | + | 28510 | 0.66 | 0.986643 |
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Target: 5'- cAUCAGUGUCUcaagagggGcCGCGAAUUCUGg-- -3' miRNA: 3'- -UAGUCACAGA--------CaGCGUUUGGGACaau -5' |
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| 13257 | 3' | -50.6 | NC_003401.1 | + | 8264 | 0.66 | 0.980686 |
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Target: 5'- cGUCGGUGUCgaagaaGUCGCAGAacauguCCCgGUg- -3' miRNA: 3'- -UAGUCACAGa-----CAGCGUUU------GGGaCAau -5' |
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| 13257 | 3' | -50.6 | NC_003401.1 | + | 82351 | 0.67 | 0.972939 |
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Target: 5'- --gAGUGUCUGUgGCGGGCgUUGUc- -3' miRNA: 3'- uagUCACAGACAgCGUUUGgGACAau -5' |
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| 13257 | 3' | -50.6 | NC_003401.1 | + | 29101 | 0.67 | 0.963161 |
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Target: 5'- gGUCGGUGUCUG-CGUGAGCCg----- -3' miRNA: 3'- -UAGUCACAGACaGCGUUUGGgacaau -5' |
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| 13257 | 3' | -50.6 | NC_003401.1 | + | 114582 | 1.05 | 0.010801 |
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Target: 5'- aAUCAGUGUCUGUCGCAAACCCUGUUAa -3' miRNA: 3'- -UAGUCACAGACAGCGUUUGGGACAAU- -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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