miRNA: 3'- uuuguUACUACCU------UAGGUAUCU---AACC- -5'
miRNA: 3'- -UUUGUUACuaCCuuAgGUAUCUAACc -5'
miRNA: 3'- -UUUGUUACUAccuUAGGUAUCUA-----ACC- -5'
miRNA: 3'- uuUGUUACUACCUUaGGUAUCUAaCC- -5'
miRNA: 3'- -UUUGUUACUACCUUAGGUAUCUAACC- -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 | |||||||
| 271 | 5' | -42 | AC_000008.1 | + | 13753 | 0.66 | 0.999536 |
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Target: 5'- ----cAUGGUGGGguugugAUCCAUGGGaguUUGGg -3' miRNA: 3'- uuuguUACUACCU------UAGGUAUCU---AACC- -5' |
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| 271 | 5' | -42 | AC_000008.1 | + | 10138 | 0.68 | 0.997611 |
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Target: 5'- gGAGCGGUGc-GGggUgCAUAGGUUGc -3' miRNA: 3'- -UUUGUUACuaCCuuAgGUAUCUAACc -5' |
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| 271 | 5' | -42 | AC_000008.1 | + | 10415 | 0.69 | 0.994817 |
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Target: 5'- aAGGCGAUGAU---AUCCGUAGAUguaccUGGa -3' miRNA: 3'- -UUUGUUACUAccuUAGGUAUCUA-----ACC- -5' |
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| 271 | 5' | -42 | AC_000008.1 | + | 6233 | 0.78 | 0.760171 |
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Target: 5'- -cACAAUGAUGGGA-CUAUAGAU-GGg -3' miRNA: 3'- uuUGUUACUACCUUaGGUAUCUAaCC- -5' |
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| 271 | 5' | -42 | AC_000008.1 | + | 29679 | 1.11 | 0.011226 |
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Target: 5'- cAAACAAUGAUGGAAUCCAUAGAUUGGa -3' miRNA: 3'- -UUUGUUACUACCUUAGGUAUCUAACC- -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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