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miRNA: 3'- -GUUAGCUAa---------GCUG-CCGGCG-GGUGUAG- -5'
miRNA: 3'- guuAGCUa---AGCUGCCGGCGGGU--GUAG- -5'
miRNA: 3'- guUAGCUAAGCUGCCGGCg-GGUgUAG- -5'
Results 21 - 23 of 23 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 | |||||||
| 12248 | 5' | -53.6 | NC_003309.1 | + | 23743 | 0.74 | 0.351138 |
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Target: 5'- cCAAUCGAUcagaacagccCGACuGGCUGCgCCGCAUCg -3' miRNA: 3'- -GUUAGCUAa---------GCUG-CCGGCG-GGUGUAG- -5' |
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| 12248 | 5' | -53.6 | NC_003309.1 | + | 29528 | 0.75 | 0.310436 |
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Target: 5'- --uUCGGcagaUCGACGGCCGUCCGacCAUCg -3' miRNA: 3'- guuAGCUa---AGCUGCCGGCGGGU--GUAG- -5' |
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| 12248 | 5' | -53.6 | NC_003309.1 | + | 49949 | 0.75 | 0.287789 |
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Target: 5'- -cGUCGAUUCGGCGGCCGagCCG-GUCa -3' miRNA: 3'- guUAGCUAAGCUGCCGGCg-GGUgUAG- -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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