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miRNA: 3'- aGCGCuGGaGCGCGu--GGGAGCGGGUC- -5'
miRNA: 3'- agCG-CUGGA--GCGCGUGGGaGCGGgUC- -5'
miRNA: 3'- aGCGC-----UGGaGCGCGUG-GGAGCGGGUc -5'
miRNA: 3'- -AGCGCuGGAGCGC-------------GugGGAGcGGGUC- -5'
miRNA: 3'- -AGCGCUGGAGCGCGUGGGAGCGGGUC- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 13622 | 5' | -62.3 | NC_003460.1 | + | 4334 | 0.66 | 0.049507 |
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Target: 5'- gCGCGuCC-CGCGCuccCUCUCGUCUGGc -3' miRNA: 3'- aGCGCuGGaGCGCGu--GGGAGCGGGUC- -5' |
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| 13622 | 5' | -62.3 | NC_003460.1 | + | 5696 | 0.7 | 0.019492 |
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Target: 5'- -gGCgGGCCUccCGCGCACCCcUGCCgGGg -3' miRNA: 3'- agCG-CUGGA--GCGCGUGGGaGCGGgUC- -5' |
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| 13622 | 5' | -62.3 | NC_003460.1 | + | 5102 | 0.71 | 0.016483 |
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Target: 5'- aCGCGccacaGCCgCGUGCGCuCCUUGCCCGa -3' miRNA: 3'- aGCGC-----UGGaGCGCGUG-GGAGCGGGUc -5' |
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| 13622 | 5' | -62.3 | NC_003460.1 | + | 3580 | 0.72 | 0.01343 |
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Target: 5'- gUCGCGuCCUCGCGggaaucgaugucuCugCCUC-CCCAGa -3' miRNA: 3'- -AGCGCuGGAGCGC-------------GugGGAGcGGGUC- -5' |
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| 13622 | 5' | -62.3 | NC_003460.1 | + | 4789 | 1.09 | 0.000006 |
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Target: 5'- cUCGCGACCUCGCGCACCCUCGCCCAGg -3' miRNA: 3'- -AGCGCUGGAGCGCGUGGGAGCGGGUC- -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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