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miRNA: 3'- aCAUA--UGGAACCUG-AGGuGUC------------UCCGa -5'
miRNA: 3'- acaUAUGGAACCUGa---GGUGuc---UCCGa -5'
miRNA: 3'- acauaUGGAACCUGag------GUGUCUCCGa -5'
miRNA: 3'- aCAUAU-GGAACCUG-AG-GUGUCuCCGa -5'
Results 1 - 4 of 4 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 | |||||||
| 32354 | 3' | -52.1 | NC_007024.1 | + | 33892 | 0.66 | 0.861704 |
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Target: 5'- aGUGUuuGCCUUGGGCaUCC-CGGuuaccucguugaAGGCg -3' miRNA: 3'- aCAUA--UGGAACCUG-AGGuGUC------------UCCGa -5' |
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| 32354 | 3' | -52.1 | NC_007024.1 | + | 26476 | 0.67 | 0.806685 |
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Target: 5'- --aAUGCCUUGGACgacgCCAUuuaccAGGCg -3' miRNA: 3'- acaUAUGGAACCUGa---GGUGuc---UCCGa -5' |
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| 32354 | 3' | -52.1 | NC_007024.1 | + | 8734 | 0.68 | 0.733839 |
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Target: 5'- ----cGCCUUGGACgcgaccugCACAGAGGUc -3' miRNA: 3'- acauaUGGAACCUGag------GUGUCUCCGa -5' |
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| 32354 | 3' | -52.1 | NC_007024.1 | + | 52380 | 0.72 | 0.499212 |
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Target: 5'- gGUGUAuCCUUGGGCaUCgCACAGuGGUg -3' miRNA: 3'- aCAUAU-GGAACCUG-AG-GUGUCuCCGa -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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