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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 | |||||||
| 12216 | 3' | -49.7 | NC_003309.1 | + | 16754 | 0.66 | 0.952692 |
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Target: 5'- cGuCGcgCGCCGACGucAGGAacgcgCGGAAGc -3' miRNA: 3'- cC-GCuaGCGGCUGU--UCCUaa---GCUUUC- -5' |
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| 12216 | 3' | -49.7 | NC_003309.1 | + | 29915 | 0.66 | 0.948097 |
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Target: 5'- aGUGGUgCGUCGACAAGGGgaagcgCGAc-- -3' miRNA: 3'- cCGCUA-GCGGCUGUUCCUaa----GCUuuc -5' |
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| 12216 | 3' | -49.7 | NC_003309.1 | + | 18760 | 0.66 | 0.948097 |
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Target: 5'- -aCGAUCGCCGGCGGcGAUagUCGGc-- -3' miRNA: 3'- ccGCUAGCGGCUGUUcCUA--AGCUuuc -5' |
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| 12216 | 3' | -49.7 | NC_003309.1 | + | 33314 | 0.67 | 0.943217 |
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Target: 5'- gGGCG-UCGCCGGugacgaauggguCAAGGAcuggcUCGAAGc -3' miRNA: 3'- -CCGCuAGCGGCU------------GUUCCUa----AGCUUUc -5' |
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| 12216 | 3' | -49.7 | NC_003309.1 | + | 22452 | 0.67 | 0.938046 |
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Target: 5'- cGGCGAUCGCaCG-CugccGGcgUCGAGc- -3' miRNA: 3'- -CCGCUAGCG-GCuGuu--CCuaAGCUUuc -5' |
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| 12216 | 3' | -49.7 | NC_003309.1 | + | 19834 | 0.69 | 0.878404 |
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Target: 5'- cGGCGAUCGCCGACugcaa--CGAc-- -3' miRNA: 3'- -CCGCUAGCGGCUGuuccuaaGCUuuc -5' |
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| 12216 | 3' | -49.7 | NC_003309.1 | + | 31093 | 0.7 | 0.826399 |
|
Target: 5'- cGGCGGUauUCGAaAAGGAgUUCGAGAGa -3' miRNA: 3'- -CCGCUAgcGGCUgUUCCU-AAGCUUUC- -5' |
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| 12216 | 3' | -49.7 | NC_003309.1 | + | 20188 | 0.7 | 0.815954 |
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Target: 5'- cGGCGAaccgcuUCGCCGACAcgAGcaccugcGAUUCGAc-- -3' miRNA: 3'- -CCGCU------AGCGGCUGU--UC-------CUAAGCUuuc -5' |
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| 12216 | 3' | -49.7 | NC_003309.1 | + | 37030 | 0.71 | 0.777026 |
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Target: 5'- cGCGAUCGCCaagGGCGAGGc--CGAAGc -3' miRNA: 3'- cCGCUAGCGG---CUGUUCCuaaGCUUUc -5' |
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| 12216 | 3' | -49.7 | NC_003309.1 | + | 31485 | 0.72 | 0.73459 |
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Target: 5'- gGGUGAUCGCCGGCGg-----CGAAAGc -3' miRNA: 3'- -CCGCUAGCGGCUGUuccuaaGCUUUC- -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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