miRNA: 3'- aUGCGUGAAGC-GUGGu---CGGaCa-----GACU- -5'
miRNA: 3'- aUGCGUGAAGCGU-----------GGUCGGAcaGACU- -5'
miRNA: 3'- aUGCGu---GAAGCg-UGGUCGGACaGACu -5'
miRNA: 3'- aUGCGUgaAGCGUGGUCG-GACa-----GACU- -5'
miRNA: 3'- -AUGCGUGAAGCGUGGUCGGACAGACU- -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 | |||||||
| 26664 | 5' | -55.3 | NC_005808.1 | + | 29527 | 0.66 | 0.601065 |
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Target: 5'- cGCGCGCUUCGuCGCCugguGCCaGgagcacCUGGg -3' miRNA: 3'- aUGCGUGAAGC-GUGGu---CGGaCa-----GACU- -5' |
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| 26664 | 5' | -55.3 | NC_005808.1 | + | 38816 | 0.66 | 0.58973 |
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Target: 5'- aGCGCACUUUGCGcaccucgccgcCCAGCUUc-CUGAc -3' miRNA: 3'- aUGCGUGAAGCGU-----------GGUCGGAcaGACU- -5' |
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| 26664 | 5' | -55.3 | NC_005808.1 | + | 2501 | 0.68 | 0.448836 |
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Target: 5'- gGCGCcgauCUUCGagGCCGGCCUG-CUGc -3' miRNA: 3'- aUGCGu---GAAGCg-UGGUCGGACaGACu -5' |
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| 26664 | 5' | -55.3 | NC_005808.1 | + | 7829 | 0.7 | 0.380997 |
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Target: 5'- gGCGCAgaUCGCGCCGGUgCUGcaaucgCUGAc -3' miRNA: 3'- aUGCGUgaAGCGUGGUCG-GACa-----GACU- -5' |
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| 26664 | 5' | -55.3 | NC_005808.1 | + | 12866 | 1.07 | 0.000765 |
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Target: 5'- cUACGCACUUCGCACCAGCCUGUCUGAg -3' miRNA: 3'- -AUGCGUGAAGCGUGGUCGGACAGACU- -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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