miRNA: 3'- guCUCUGGAugAaaUUCG-----ACCCGUUG- -5'
miRNA: 3'- gUCUCUGgaugaaaUUCGACCCGUUG- -5'
miRNA: 3'- -GUCUCuGGAUGAaa---UUCGaC-CCGUUG- -5'
miRNA: 3'- gUCuCUGGa-----------UGAAauUCGACCCGUUG- -5'
miRNA: 3'- -GUCUCUGGAUGAAAUUCGACCCGUUG- -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 | |||||||
| 10652 | 5' | -49.4 | NC_002702.1 | + | 9853 | 0.66 | 0.858029 |
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Target: 5'- -uGGGACUUugUggAGGCguaugUGGGUAACc -3' miRNA: 3'- guCUCUGGAugAaaUUCG-----ACCCGUUG- -5' |
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| 10652 | 5' | -49.4 | NC_002702.1 | + | 22125 | 0.66 | 0.848748 |
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Target: 5'- aGGAGACg------AGGUUGGGCAGCu -3' miRNA: 3'- gUCUCUGgaugaaaUUCGACCCGUUG- -5' |
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| 10652 | 5' | -49.4 | NC_002702.1 | + | 13915 | 0.7 | 0.623439 |
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Target: 5'- cCAGAGcCCUGCUgcggcGAGC-GaGGCGACg -3' miRNA: 3'- -GUCUCuGGAUGAaa---UUCGaC-CCGUUG- -5' |
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| 10652 | 5' | -49.4 | NC_002702.1 | + | 24893 | 0.7 | 0.621014 |
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Target: 5'- aAGuGACCgccuugaugcgcACUUcuGGCUGGGCGGCu -3' miRNA: 3'- gUCuCUGGa-----------UGAAauUCGACCCGUUG- -5' |
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| 10652 | 5' | -49.4 | NC_002702.1 | + | 16534 | 1.12 | 0.001094 |
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Target: 5'- aCAGAGACCUACUUUAAGCUGGGCAACa -3' miRNA: 3'- -GUCUCUGGAUGAAAUUCGACCCGUUG- -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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