miRNA: 3'- -GCAC-CuuGUCCaCGCGGCACCCuuag -5'
miRNA: 3'- gCAcCUUGUCCaCG--CGGCACC-CUUAG- -5'
miRNA: 3'- -GCACCU--UGU------------CCaCGCGGCACCCUUag -5'
miRNA: 3'- gCAcCUUGUCCACGCGGCa-----CCCU---UAG- -5'
miRNA: 3'- -GCACCUUGUCCACGCGGCACCCUUAG- -5'
Results 1 - 5 of 5 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 | |||||||
| 26757 | 3' | -55.8 | NC_005808.1 | + | 35505 | 0.67 | 0.573628 |
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Target: 5'- uCGUGcGcgUGGGcGCGCCGUGGGu--- -3' miRNA: 3'- -GCAC-CuuGUCCaCGCGGCACCCuuag -5' |
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| 26757 | 3' | -55.8 | NC_005808.1 | + | 3818 | 0.71 | 0.328845 |
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Target: 5'- aGUuGGGCAGGcGCuuGCCGUGGuGAGUCa -3' miRNA: 3'- gCAcCUUGUCCaCG--CGGCACC-CUUAG- -5' |
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| 26757 | 3' | -55.8 | NC_005808.1 | + | 15273 | 0.71 | 0.328845 |
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Target: 5'- aCGUGGAaaGCAacgcgcgccuguGG-GCGUCGUGGGAAg- -3' miRNA: 3'- -GCACCU--UGU------------CCaCGCGGCACCCUUag -5' |
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| 26757 | 3' | -55.8 | NC_005808.1 | + | 15986 | 0.76 | 0.160988 |
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Target: 5'- uGUcGAACAGGUGCGCCGcgcgcaGGGAcagGUCg -3' miRNA: 3'- gCAcCUUGUCCACGCGGCa-----CCCU---UAG- -5' |
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| 26757 | 3' | -55.8 | NC_005808.1 | + | 23475 | 1.09 | 0.000597 |
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Target: 5'- gCGUGGAACAGGUGCGCCGUGGGAAUCu -3' miRNA: 3'- -GCACCUUGUCCACGCGGCACCCUUAG- -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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