miRNA: 3'- ugUUCCUGG-GUGC-CCC-GGCU-----UUCGGu -5'
miRNA: 3'- ugUUCCUGGG-UGC--CCCGGCu--UUCGgu -5'
miRNA: 3'- -UGUUCCUGGGUGCCCCGGCUUUCGGU- -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 | |||||||
| 22013 | 5' | -58.8 | NC_004915.1 | + | 5914 | 0.66 | 0.11501 |
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Target: 5'- -gAAGGACCuUACGaGGGaCCGGugaagAAGCCu -3' miRNA: 3'- ugUUCCUGG-GUGC-CCC-GGCU-----UUCGGu -5' |
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| 22013 | 5' | -58.8 | NC_004915.1 | + | 5773 | 0.67 | 0.086057 |
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Target: 5'- -gAAGGACCCuACGccGGGCCGcucGAGCg- -3' miRNA: 3'- ugUUCCUGGG-UGC--CCCGGCu--UUCGgu -5' |
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| 22013 | 5' | -58.8 | NC_004915.1 | + | 769 | 1.07 | 0.000031 |
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Target: 5'- aACAAGGACCCACGGGGCCGAAAGCCAc -3' miRNA: 3'- -UGUUCCUGGGUGCCCCGGCUUUCGGU- -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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