miRNA: 3'- -UUCGAACGGCUG-------AGACGUauUCGuuu -5'
miRNA: 3'- -UUCGAACGgcUGa-GACGUAUUCGUUU- -5'
miRNA: 3'- -UUCGAACGGCUGAGACGUAUUCGUUU- -5'
Results 1 - 3 of 3 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 | |||||||
| 4320 | 5' | -50.8 | NC_001720.1 | + | 40793 | 0.66 | 0.802085 |
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Target: 5'- uGGGCUUGCUGGCaggugucUCUGCGguAGCu-- -3' miRNA: 3'- -UUCGAACGGCUG-------AGACGUauUCGuuu -5' |
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| 4320 | 5' | -50.8 | NC_001720.1 | + | 1612 | 0.68 | 0.69023 |
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Target: 5'- gGAGCUUGC--GCcgCUGCGUAAGUGAAg -3' miRNA: 3'- -UUCGAACGgcUGa-GACGUAUUCGUUU- -5' |
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| 4320 | 5' | -50.8 | NC_001720.1 | + | 1649 | 1.04 | 0.002761 |
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Target: 5'- aAAGCUUGCCGACUCUGCAUAAGCAAAa -3' miRNA: 3'- -UUCGAACGGCUGAGACGUAUUCGUUU- -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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