miRNA: 3'- -CAUGGCcUGCGGCaa--CGAUAGG----GUCG- -5'
miRNA: 3'- cAUGGCCUGCGGca----ACGauaGGGuCG- -5'
miRNA: 3'- caUGG--CC-UGCGGCa----ACGAUAgGGUCG- -5'
miRNA: 3'- caUGGCCuGCGGCAAcGAu-AgGGUCG- -5'
miRNA: 3'- caUGG-CCUGCGGCaa-CGauagGGUCG- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 30809 | 5' | -55.3 | NC_006552.1 | + | 50170 | 0.68 | 0.635073 |
|
Target: 5'- cGUACUGcGCGCUGgucgGCUAUCUgccgCAGCa -3' miRNA: 3'- -CAUGGCcUGCGGCaa--CGAUAGG----GUCG- -5' |
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| 30809 | 5' | -55.3 | NC_006552.1 | + | 53536 | 0.69 | 0.570076 |
|
Target: 5'- aUGCCGGACGCCcaagccUGCg--CCC-GCa -3' miRNA: 3'- cAUGGCCUGCGGca----ACGauaGGGuCG- -5' |
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| 30809 | 5' | -55.3 | NC_006552.1 | + | 59918 | 0.66 | 0.731657 |
|
Target: 5'- -cACCaaGGcGCGCCGgaccgUGCUGU-CCGGCu -3' miRNA: 3'- caUGG--CC-UGCGGCa----ACGAUAgGGUCG- -5' |
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| 30809 | 5' | -55.3 | NC_006552.1 | + | 62972 | 0.67 | 0.667657 |
|
Target: 5'- -gGCCGG-CGCCGUU-CUucUgCCGGCg -3' miRNA: 3'- caUGGCCuGCGGCAAcGAu-AgGGUCG- -5' |
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| 30809 | 5' | -55.3 | NC_006552.1 | + | 65082 | 0.67 | 0.710596 |
|
Target: 5'- -aACCuGGACGCCGccgGCg---CCGGCa -3' miRNA: 3'- caUGG-CCUGCGGCaa-CGauagGGUCG- -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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