miRNA: 3'- -UCUGGA-----GCCCGGAC-AGCU----------UGCGAGac -5'
miRNA: 3'- -UCUGga-GC-CCGGACAGCUu----GCGAGAC- -5'
miRNA: 3'- -UCUGGAGCCCGGACAGCUUGCGAGAC- -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 | |||||||
| 18023 | 5' | -57.7 | NC_004665.1 | + | 27018 | 0.68 | 0.334116 |
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Target: 5'- gAGACCUucuguUGGGCCUGcUUGGcguugccaguGCGCUCg- -3' miRNA: 3'- -UCUGGA-----GCCCGGAC-AGCU----------UGCGAGac -5' |
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| 18023 | 5' | -57.7 | NC_004665.1 | + | 17232 | 0.7 | 0.259445 |
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Target: 5'- aGGGCaagCGuGGUCUGUCGGuagcuCGCUCUGc -3' miRNA: 3'- -UCUGga-GC-CCGGACAGCUu----GCGAGAC- -5' |
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| 18023 | 5' | -57.7 | NC_004665.1 | + | 25045 | 1.09 | 0.00036 |
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Target: 5'- aAGACCUCGGGCCUGUCGAACGCUCUGg -3' miRNA: 3'- -UCUGGAGCCCGGACAGCUUGCGAGAC- -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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