miRNA: 3'- uUAGGCCGUCCACU---UCAGuuua-GCGU- -5'
miRNA: 3'- uuAGGCCGu------CCACUUCAGU-UUAGC-GU- -5'
miRNA: 3'- -UUAGGCCGUCCACUUCAGUUUAGCGU- -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 | |||||||
| 32244 | 5' | -51.2 | NC_007022.1 | + | 33372 | 0.71 | 0.889965 |
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Target: 5'- cAUCUGGCAGGUGGugcAGUUuaccgCGCAc -3' miRNA: 3'- uUAGGCCGUCCACU---UCAGuuua-GCGU- -5' |
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| 32244 | 5' | -51.2 | NC_007022.1 | + | 126155 | 0.73 | 0.799052 |
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Target: 5'- -uUCCGGCugcggucGGUGAGGUCGuAAUCGaCAa -3' miRNA: 3'- uuAGGCCGu------CCACUUCAGU-UUAGC-GU- -5' |
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| 32244 | 5' | -51.2 | NC_007022.1 | + | 5237 | 1.06 | 0.011926 |
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Target: 5'- uAAUCCGGCAGGUGAAGUCAAAUCGCAc -3' miRNA: 3'- -UUAGGCCGUCCACUUCAGUUUAGCGU- -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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