miRNA: 3'- uuCGUCGUUCU----CACaGCCCAu---AGGGC- -5'
miRNA: 3'- -UUCGUCGU--------UCUCA---CAGCCCaUAGGGc -5'
miRNA: 3'- -UUCGUCGUUCUCACAGCCCAUAGGGC- -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 | |||||||
| 773 | 3' | -54.8 | NC_000852.3 | + | 158970 | 0.66 | 0.984208 |
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Target: 5'- -uGUAGCGGGAcucaGUGaCGGGUuuucUCCCGc -3' miRNA: 3'- uuCGUCGUUCU----CACaGCCCAu---AGGGC- -5' |
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| 773 | 3' | -54.8 | NC_000852.3 | + | 151232 | 0.73 | 0.773803 |
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Target: 5'- gAGGCAGCAaagccccgAGGGUuuuGUCGGGaAUCCCu -3' miRNA: 3'- -UUCGUCGU--------UCUCA---CAGCCCaUAGGGc -5' |
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| 773 | 3' | -54.8 | NC_000852.3 | + | 87224 | 1.07 | 0.009222 |
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Target: 5'- aAAGCAGCAAGAGUGUCGGGUAUCCCGg -3' miRNA: 3'- -UUCGUCGUUCUCACAGCCCAUAGGGC- -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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