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miRNA: 3'- -GUGGAAcGCGA-UUAU---GAGACAGAGUC- -5'
miRNA: 3'- guGGAACGCGAUUAugAGACAG-AGUc -5'
miRNA: 3'- -GUGGAAc--GCGau-UAUGAGACAGAGUC- -5'
miRNA: 3'- -GUGGAACGCGAUUAUGAGACAGAGUC- -5'
miRNA: 3'- -GUGGAACGCGAUUAUGAGACAGAGUC- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 21785 | 5' | -49 | NC_004813.1 | + | 5308 | 0.66 | 0.959358 |
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Target: 5'- cCACCUUcUGCUcAGUGgcuUUCUGUUUCAGg -3' miRNA: 3'- -GUGGAAcGCGA-UUAU---GAGACAGAGUC- -5' |
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| 21785 | 5' | -49 | NC_004813.1 | + | 55776 | 0.67 | 0.923395 |
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Target: 5'- -cUCUUGCGCUAAUuuUUUGUCaUCAa -3' miRNA: 3'- guGGAACGCGAUUAugAGACAG-AGUc -5' |
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| 21785 | 5' | -49 | NC_004813.1 | + | 33406 | 0.71 | 0.788162 |
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Target: 5'- uCGCCUUcacCGCaucAUGCUCUGUUUCAGu -3' miRNA: 3'- -GUGGAAc--GCGau-UAUGAGACAGAGUC- -5' |
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| 21785 | 5' | -49 | NC_004813.1 | + | 55729 | 1.1 | 0.003544 |
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Target: 5'- uCACCUUGCGCUAAUACUCUGUCUCAGg -3' miRNA: 3'- -GUGGAACGCGAUUAUGAGACAGAGUC- -5' |
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| 21785 | 5' | -49 | NC_004813.1 | + | 51028 | 1.1 | 0.003544 |
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Target: 5'- uCACCUUGCGCUAAUGCUCUGUCUCAGg -3' miRNA: 3'- -GUGGAACGCGAUUAUGAGACAGAGUC- -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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