miRNA: 3'- agUGGGCUCGUCGu---CGAUuaaCGAUa -5'
miRNA: 3'- agUGGGCUCGUcGUCGAuuaaCGAua -5'
miRNA: 3'- -AGUGGGCUCGUCGUCGAUUAACGAUA- -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 | |||||||
| 13929 | 5' | -52 | NC_003515.1 | + | 1664 | 0.67 | 0.130423 |
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Target: 5'- -uGCUCGGGCAGCugucGCUAug-GCUGc -3' miRNA: 3'- agUGGGCUCGUCGu---CGAUuaaCGAUa -5' |
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| 13929 | 5' | -52 | NC_003515.1 | + | 1676 | 0.68 | 0.117191 |
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Target: 5'- -uGCCCGAGCAuCAGCUucg-GCUu- -3' miRNA: 3'- agUGGGCUCGUcGUCGAuuaaCGAua -5' |
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| 13929 | 5' | -52 | NC_003515.1 | + | 737 | 1.06 | 0.000061 |
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Target: 5'- gUCACCCGAGCAGCAGCUAAUUGCUAUu -3' miRNA: 3'- -AGUGGGCUCGUCGUCGAUUAACGAUA- -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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