miRNA: 3'- -GAGGAGGCGCUGUUGGUGCACGUACU- -5'
miRNA: 3'- gaGGAGGCgc--UGUUGGUGCACGUacu -5'
miRNA: 3'- gAGGAGGCG------------CUGUUggUGCACGuACU- -5'
miRNA: 3'- gaGGAGGCGCUGuuGGUG-CACGU---ACU- -5'
miRNA: 3'- gAGGAGGCG-CUGU-------UGGuGCACGuACU- -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 |
| Predicted miRNA align pattern | |||||||
| 28340 | 5' | -54.7 | NC_005946.1 | + | 4398 | 1.09 | 0.002441 |
|
Target: 5'- cCUCCUCCGCGACAACCACGUGCAUGAg -3' miRNA: 3'- -GAGGAGGCGCUGUUGGUGCACGUACU- -5' |
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| 28340 | 5' | -54.7 | NC_005946.1 | + | 48578 | 0.7 | 0.678086 |
|
Target: 5'- -aCCUCUGaaacACAGCCACGUGCAc-- -3' miRNA: 3'- gaGGAGGCgc--UGUUGGUGCACGUacu -5' |
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| 28340 | 5' | -54.7 | NC_005946.1 | + | 10348 | 0.68 | 0.779114 |
|
Target: 5'- uUCCUCCGCucccuucaggauGACGGagGCGUGCuUGAg -3' miRNA: 3'- gAGGAGGCG------------CUGUUggUGCACGuACU- -5' |
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| 28340 | 5' | -54.7 | NC_005946.1 | + | 95712 | 0.67 | 0.866266 |
|
Target: 5'- -cUCUCUGCGGCu-CCGCuGUGCAuagUGAa -3' miRNA: 3'- gaGGAGGCGCUGuuGGUG-CACGU---ACU- -5' |
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| 28340 | 5' | -54.7 | NC_005946.1 | + | 34608 | 0.66 | 0.880521 |
|
Target: 5'- gUCCUCCGUgGACGuccccgcGCC-CGUGC-UGGa -3' miRNA: 3'- gAGGAGGCG-CUGU-------UGGuGCACGuACU- -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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