miRNA: 3'- -GGUUUCCUCUUCGAGUUGAGUUCGGG- -5'
miRNA: 3'- -GGUUUCCUCUUCGAgUug-AGUUCgGG- -5'
miRNA: 3'- ggUUU-CCUCuuCGAgU--UGAGUUCGGg -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 |
| Predicted miRNA align pattern | |||||||
| 3140 | 3' | -48.9 | NC_001497.1 | + | 6364 | 1.16 | 9e-05 |
|
Target: 5'- cCCAAAGGAGAAGCUCAACUCAAGCCCa -3' miRNA: 3'- -GGUUUCCUCUUCGAGUUGAGUUCGGG- -5' |
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| 3140 | 3' | -48.9 | NC_001497.1 | + | 5250 | 0.8 | 0.051186 |
|
Target: 5'- aCCAGAGGAGAAGCUgAucaUCGAGaCCg -3' miRNA: 3'- -GGUUUCCUCUUCGAgUug-AGUUCgGG- -5' |
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| 3140 | 3' | -48.9 | NC_001497.1 | + | 1622 | 0.67 | 0.413264 |
|
Target: 5'- -aGAGuGGGGggGUUgAuuACUCGAGCCa -3' miRNA: 3'- ggUUU-CCUCuuCGAgU--UGAGUUCGGg -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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