miRNA: 3'- -UGGCacaCAGGUCCUUUUU---UGCCaCC- -5'
miRNA: 3'- -UGGCAC-ACA--GGUCCuuUUUUGCCacc -5'
miRNA: 3'- -UGGCACACAGGUC-CuuuuuUGCCACc -5'
miRNA: 3'- -UGGc----ACACAG----GUCCuuUUUUGCCACC- -5'
miRNA: 3'- -UGGCACACAGGUCCUUUUUUGCCACC- -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 | |||||||
| 21193 | 3' | -49.6 | NC_004778.3 | + | 125951 | 0.66 | 0.995842 |
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Target: 5'- aACCGc--GUUCAGGAGGAAaagGCGGcGGa -3' miRNA: 3'- -UGGCacaCAGGUCCUUUUU---UGCCaCC- -5' |
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| 21193 | 3' | -49.6 | NC_004778.3 | + | 23287 | 0.7 | 0.961086 |
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Target: 5'- gACCGUGuUGUugCCGGGcgGAAACGGg-- -3' miRNA: 3'- -UGGCAC-ACA--GGUCCuuUUUUGCCacc -5' |
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| 21193 | 3' | -49.6 | NC_004778.3 | + | 55872 | 0.72 | 0.917756 |
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Target: 5'- gGCCGUGUGUUCGGcGucaccACGGUGu -3' miRNA: 3'- -UGGCACACAGGUC-CuuuuuUGCCACc -5' |
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| 21193 | 3' | -49.6 | NC_004778.3 | + | 47144 | 0.72 | 0.917756 |
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Target: 5'- cGCCaagauUGUGUUauugCAGGgcGAAACGGUGGg -3' miRNA: 3'- -UGGc----ACACAG----GUCCuuUUUUGCCACC- -5' |
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| 21193 | 3' | -49.6 | NC_004778.3 | + | 114664 | 1.12 | 0.006949 |
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Target: 5'- gACCGUGUGUCCAGGAAAAAACGGUGGg -3' miRNA: 3'- -UGGCACACAGGUCCUUUUUUGCCACC- -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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