miRNA: 3'- -GUGGCACCACUGa---------UGGCGcUGCCa----CU- -5'
miRNA: 3'- -GUGG-CACCaCUGaUGGCGCUG---------CCACU- -5'
miRNA: 3'- -GUGGCACCACUGaUGGCGcuGCCaCU- -5'
miRNA: 3'- -GUGGCACCACUGAUGGCGCUGCCACU- -5'
Results 21 - 24 of 24 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 | |||||||
| 2935 | 3' | -56.5 | NC_001493.1 | + | 44051 | 0.72 | 0.569676 |
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Target: 5'- gCACCGUGGUGACggccccucagACCGUcGCGGcccagGAg -3' miRNA: 3'- -GUGGCACCACUGa---------UGGCGcUGCCa----CU- -5' |
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| 2935 | 3' | -56.5 | NC_001493.1 | + | 85804 | 0.72 | 0.54968 |
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Target: 5'- aCACCgGUGG-GACcGCCGCGGCauaaaacucGGUGAu -3' miRNA: 3'- -GUGG-CACCaCUGaUGGCGCUG---------CCACU- -5' |
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| 2935 | 3' | -56.5 | NC_001493.1 | + | 63234 | 0.76 | 0.344292 |
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Target: 5'- aCACCGUGGUGACcACCGCacCGGcGAc -3' miRNA: 3'- -GUGGCACCACUGaUGGCGcuGCCaCU- -5' |
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| 2935 | 3' | -56.5 | NC_001493.1 | + | 63153 | 1.09 | 0.002515 |
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Target: 5'- aCACCGUGGUGACUACCGCGACGGUGAa -3' miRNA: 3'- -GUGGCACCACUGAUGGCGCUGCCACU- -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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