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miRNA: 3'- gacaaCGCAUCGGUuaGGCGG-UGUGc -5'
miRNA: 3'- gACaa---CGCAU-CGGU-----UAGGCGGUGUGc -5'
miRNA: 3'- gaCAACGCaUCGGuua-GGCGGUGUGC- -5'
miRNA: 3'- -GACAACGCAUCGGUUAGGCGGUGUGC- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 24002 | 3' | -53.3 | NC_005262.1 | + | 35799 | 0.69 | 0.683554 |
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Target: 5'- ----aGCGUGGCCGucCCGCCgACGCc -3' miRNA: 3'- gacaaCGCAUCGGUuaGGCGG-UGUGc -5' |
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| 24002 | 3' | -53.3 | NC_005262.1 | + | 14141 | 0.72 | 0.49824 |
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Target: 5'- gUGggaugGCGUGcGCCGggauuGUCCGCCGCGCc -3' miRNA: 3'- gACaa---CGCAU-CGGU-----UAGGCGGUGUGc -5' |
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| 24002 | 3' | -53.3 | NC_005262.1 | + | 23456 | 0.78 | 0.23751 |
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Target: 5'- -cGUUGCG-GGCCuucgCCGCCGCGCGc -3' miRNA: 3'- gaCAACGCaUCGGuua-GGCGGUGUGC- -5' |
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| 24002 | 3' | -53.3 | NC_005262.1 | + | 20611 | 1.09 | 0.001942 |
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Target: 5'- gCUGUUGCGUAGCCAAUCCGCCACACGu -3' miRNA: 3'- -GACAACGCAUCGGUUAGGCGGUGUGC- -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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