miRNA: 3'- aaCAUg-UCUUAAGGCCG------------CGGACa-UUG- -5'
miRNA: 3'- aAC-AUGUCUUaagGCCGCGGACAUUG- -5'
miRNA: 3'- aAC-AUGUCUUaagGCCGCGGACAUUG- -5'
miRNA: 3'- aacaUGUCuuAAGGCCGCGGa-----CAuUG- -5'
miRNA: 3'- -AACAUGUCUUAAGGCCGCGGACAUUG- -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 | |||||||
| 31315 | 5' | -50.2 | NC_006623.1 | + | 39316 | 0.68 | 0.968539 |
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Target: 5'- -cGUGgaGGAGUUCCGGCcgggggaacugcGCCUGggAACa -3' miRNA: 3'- aaCAUg-UCUUAAGGCCG------------CGGACa-UUG- -5' |
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| 31315 | 5' | -50.2 | NC_006623.1 | + | 147641 | 0.68 | 0.968539 |
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Target: 5'- cUGuUAUAGGGca-CGGUGCCUGUAAUa -3' miRNA: 3'- aAC-AUGUCUUaagGCCGCGGACAUUG- -5' |
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| 31315 | 5' | -50.2 | NC_006623.1 | + | 113971 | 0.68 | 0.968539 |
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Target: 5'- cUGuUAUAGGGca-CGGUGCCUGUAAUa -3' miRNA: 3'- aAC-AUGUCUUaagGCCGCGGACAUUG- -5' |
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| 31315 | 5' | -50.2 | NC_006623.1 | + | 25118 | 0.76 | 0.686293 |
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Target: 5'- ---gGCAGggUUCCGGCGCCauacggGUcGCa -3' miRNA: 3'- aacaUGUCuuAAGGCCGCGGa-----CAuUG- -5' |
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| 31315 | 5' | -50.2 | NC_006623.1 | + | 25256 | 1.07 | 0.011149 |
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Target: 5'- gUUGUACAGAAUUCCGGCGCCUGUAACc -3' miRNA: 3'- -AACAUGUCUUAAGGCCGCGGACAUUG- -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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