miRNA: 3'- aAGUUUUAGaag---CCGCGcauCGuGGG- -5'
miRNA: 3'- -AAGUUUUAGAAGCcGC-GCAU-CGUGGG- -5'
miRNA: 3'- aaguuuuaGAAGCCGCGCaUCG--UGGG- -5'
miRNA: 3'- aaGUuuuaGAAGCCGC-GCauCGUGGG- -5'
miRNA: 3'- -AAGUUUUAGAAGCCGCGCAUCGUGGG- -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 | |||||||
| 2506 | 5' | -50.2 | NC_001454.1 | + | 6880 | 0.66 | 0.840188 |
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Target: 5'- aUCAGAGUCgucgcaGGCGCccuGCuCCCa -3' miRNA: 3'- aAGUUUUAGaag---CCGCGcauCGuGGG- -5' |
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| 2506 | 5' | -50.2 | NC_001454.1 | + | 20292 | 0.67 | 0.789763 |
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Target: 5'- gUUCGAAGUUUUCGaCGuUGUGcGCAUCCa -3' miRNA: 3'- -AAGUUUUAGAAGCcGC-GCAU-CGUGGG- -5' |
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| 2506 | 5' | -50.2 | NC_001454.1 | + | 5034 | 0.67 | 0.779047 |
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Target: 5'- -------cCUUUGGCGCGaAGCuuGCCCu -3' miRNA: 3'- aaguuuuaGAAGCCGCGCaUCG--UGGG- -5' |
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| 2506 | 5' | -50.2 | NC_001454.1 | + | 9008 | 0.67 | 0.768153 |
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Target: 5'- -gCAugg-UUUCGGUGaCGgcGCGCCCg -3' miRNA: 3'- aaGUuuuaGAAGCCGC-GCauCGUGGG- -5' |
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| 2506 | 5' | -50.2 | NC_001454.1 | + | 10643 | 1.11 | 0.001135 |
|
Target: 5'- gUUCAAAAUCUUCGGCGCGUAGCACCCg -3' miRNA: 3'- -AAGUUUUAGAAGCCGCGCAUCGUGGG- -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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