miRNA: 3'- uaCGUGA---CGUCC-CUUG-GCCCu---GACCU- -5'
miRNA: 3'- -UACG-UGa------CGUCC-CU-UGGCCCUGACCU- -5'
miRNA: 3'- -UACGUGACGUCCCUUGGCCCUGACCU- -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 | |||||||
| 2275 | 5' | -58.5 | NC_001405.1 | + | 13143 | 0.68 | 0.282613 |
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Target: 5'- -cGCGCUgggGCAGGaGGACaCGGGcagcCUGGAg -3' miRNA: 3'- uaCGUGA---CGUCC-CUUG-GCCCu---GACCU- -5' |
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| 2275 | 5' | -58.5 | NC_001405.1 | + | 17124 | 0.7 | 0.211052 |
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Target: 5'- cGUGCgGCcaaucaaGCAGGuGGcACCGGGACUGGGc -3' miRNA: 3'- -UACG-UGa------CGUCC-CU-UGGCCCUGACCU- -5' |
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| 2275 | 5' | -58.5 | NC_001405.1 | + | 33640 | 1.07 | 0.000335 |
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Target: 5'- uAUGCACUGCAGGGAACCGGGACUGGAa -3' miRNA: 3'- -UACGUGACGUCCCUUGGCCCUGACCU- -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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