miRNA: 3'- -GUCGGcGACCguaua-AUGCUUUUGGg -5'
miRNA: 3'- gUCGGCGaCCGUAuaaUGCuuu--UGGG- -5'
miRNA: 3'- gUCgGCG-ACCGUA----------UAAUGCUUUUGGg -5'
miRNA: 3'- -GUCGGCGACCGUAUAAUGCUUUUGGG- -5'
Results 1 - 4 of 4 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 | |||||||
| 27268 | 3' | -48.8 | NC_005841.1 | + | 16188 | 0.66 | 0.9364 |
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Target: 5'- aCAGCUaCUGGaugagaUGCGAGAGCCa -3' miRNA: 3'- -GUCGGcGACCguaua-AUGCUUUUGGg -5' |
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| 27268 | 3' | -48.8 | NC_005841.1 | + | 20701 | 0.66 | 0.9364 |
|
Target: 5'- aGGCCGCaGGUAU---GCGcucauACCCa -3' miRNA: 3'- gUCGGCGaCCGUAuaaUGCuuu--UGGG- -5' |
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| 27268 | 3' | -48.8 | NC_005841.1 | + | 26718 | 0.69 | 0.797399 |
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Target: 5'- uGGgUGCgUGGCGUcuggucacugAUUACGAAGACCa -3' miRNA: 3'- gUCgGCG-ACCGUA----------UAAUGCUUUUGGg -5' |
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| 27268 | 3' | -48.8 | NC_005841.1 | + | 27507 | 1.14 | 0.001556 |
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Target: 5'- uCAGCCGCUGGCAUAUUACGAAAACCCg -3' miRNA: 3'- -GUCGGCGACCGUAUAAUGCUUUUGGG- -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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