miRNA: 3'- -UUGCUGUa--------CAGG--UgAUUugUGCCAGG- -5'
miRNA: 3'- uuGC-UGUACaGGUGAU----UUGUGCCAGg -5'
miRNA: 3'- -UUGCUGUACAGGUGAUUUGUGCCAGG- -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 | |||||||
| 15504 | 5' | -49 | NC_003992.2 | + | 2434 | 0.66 | 0.479392 |
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Target: 5'- aAACGACAccaaaccugGUCCuuGgUAGugAUGGUCCu -3' miRNA: 3'- -UUGCUGUa--------CAGG--UgAUUugUGCCAGG- -5' |
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| 15504 | 5' | -49 | NC_003992.2 | + | 4148 | 0.7 | 0.306575 |
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Target: 5'- -uCGuGCAUGgCCGCUGuagcAGCACGGUCa -3' miRNA: 3'- uuGC-UGUACaGGUGAU----UUGUGCCAGg -5' |
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| 15504 | 5' | -49 | NC_003992.2 | + | 4003 | 1.1 | 0.000286 |
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Target: 5'- gAACGACAUGUCCACUAAACACGGUCCc -3' miRNA: 3'- -UUGCUGUACAGGUGAUUUGUGCCAGG- -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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