miRNA: 3'- -UUgAAG-AGUUu--ACCAGau-UCAGCUGU- -5'
miRNA: 3'- -UUGAAGAGUU------------UA----CCAGAUU-CAGCUGu -5'
miRNA: 3'- -UUGAAGAGUUUACCAGAUUCAGCUGU- -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 | |||||||
| 27250 | 5' | -45.4 | NC_005839.2 | + | 19804 | 0.67 | 0.999878 |
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Target: 5'- aGAgUUCaUCAAuacUGGUCauuAGUCGACAa -3' miRNA: 3'- -UUgAAG-AGUUu--ACCAGau-UCAGCUGU- -5' |
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| 27250 | 5' | -45.4 | NC_005839.2 | + | 17559 | 0.69 | 0.998679 |
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Target: 5'- uGGCUUCUCAAgcacaagaaaugGUuagcGGUCUAAaGUCGGCu -3' miRNA: 3'- -UUGAAGAGUU------------UA----CCAGAUU-CAGCUGu -5' |
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| 27250 | 5' | -45.4 | NC_005839.2 | + | 11469 | 1.07 | 0.030394 |
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Target: 5'- aAACUUCUCAAAUGGUCUAAGUCGACAu -3' miRNA: 3'- -UUGAAGAGUUUACCAGAUUCAGCUGU- -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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