miRNA: 3'- aCCCGGACCUCG--------------GGCCUcuuUGUUUU- -5'
miRNA: 3'- -ACCCG-------GACCUCGGGC---------CUCUUUGuuuu -5'
miRNA: 3'- aCCCGGaCCUC-GGGcCUCuuUGUUUU- -5'
miRNA: 3'- aCCCGG-ACC--UCGGGC-CUCUUUGUuuu -5'
Results 81 - 84 of 84 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 | |||||||
| 5340 | 5' | -56 | NC_001798.1 | + | 45422 | 0.66 | 0.88945 |
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Target: 5'- gGGGCUUGGAGCgaccgaggccccccCCGGGccuACGAGGg -3' miRNA: 3'- aCCCGGACCUCG--------------GGCCUcuuUGUUUU- -5' |
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| 5340 | 5' | -56 | NC_001798.1 | + | 8221 | 0.66 | 0.890824 |
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Target: 5'- aUGGGUccuucguCUGGAGCCCGuacccggcaGAGAGAUu--- -3' miRNA: 3'- -ACCCG-------GACCUCGGGC---------CUCUUUGuuuu -5' |
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| 5340 | 5' | -56 | NC_001798.1 | + | 61038 | 0.66 | 0.891507 |
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Target: 5'- gGGGCCgGGGGaCCC-GAGccACAGAGc -3' miRNA: 3'- aCCCGGaCCUC-GGGcCUCuuUGUUUU- -5' |
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| 5340 | 5' | -56 | NC_001798.1 | + | 78547 | 0.66 | 0.891507 |
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Target: 5'- cGGGUCaUGGcgGGCCUGcGGGAGGCGc-- -3' miRNA: 3'- aCCCGG-ACC--UCGGGC-CUCUUUGUuuu -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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