miRNA: 3'- ugUGCCUGA--AGUAcaaCCUCCGC----UAC- -5'
miRNA: 3'- -UG-UGCCUGaaGUACaACCUCCGCUAc -5'
miRNA: 3'- -UGUGCCUgaa-GUACa----ACCuCCGCUAc -5'
miRNA: 3'- -UGugCCUGAAGUACaa------CCuCCGCUAC- -5'
miRNA: 3'- -UGUGCCUGAAGUACAACCUCCGCUAC- -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 | |||||||
| 13333 | 5' | -51.7 | NC_003409.1 | + | 42675 | 0.67 | 0.973449 |
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Target: 5'- -uGCGGACUcgUCGUcagGGAGGCGcucgGUGg -3' miRNA: 3'- ugUGCCUGA--AGUAcaaCCUCCGC----UAC- -5' |
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| 13333 | 5' | -51.7 | NC_003409.1 | + | 110957 | 0.67 | 0.967439 |
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Target: 5'- gGCgACGGGCgaUGUGcUGGGGGUGAUa -3' miRNA: 3'- -UG-UGCCUGaaGUACaACCUCCGCUAc -5' |
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| 13333 | 5' | -51.7 | NC_003409.1 | + | 54089 | 0.68 | 0.938989 |
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Target: 5'- gACACGGAaagaCAUGgauagUGGuGGCGAUc -3' miRNA: 3'- -UGUGCCUgaa-GUACa----ACCuCCGCUAc -5' |
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| 13333 | 5' | -51.7 | NC_003409.1 | + | 56951 | 0.69 | 0.911076 |
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Target: 5'- uACuuGGGCUUCAUGauucccagGGuGGUGAUGa -3' miRNA: 3'- -UGugCCUGAAGUACaa------CCuCCGCUAC- -5' |
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| 13333 | 5' | -51.7 | NC_003409.1 | + | 108017 | 1.08 | 0.007831 |
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Target: 5'- aACACGGACUUCAUGUUGGAGGCGAUGc -3' miRNA: 3'- -UGUGCCUGAAGUACAACCUCCGCUAC- -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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