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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12385 | 3' | -55.1 | NC_003324.1 | + | 6238 | 0.69 | 0.56671 |
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Target: 5'- cGUCGGGCagcGCAUuccaGGCGGCGCGGgucAGUc -3' miRNA: 3'- -UAGCCCGc--UGUA----CUGCUGUGCCa--UCA- -5' |
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| 12385 | 3' | -55.1 | NC_003324.1 | + | 7341 | 0.66 | 0.730343 |
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Target: 5'- --aGGGC-ACGcUGACGAUGCGGUuGGUa -3' miRNA: 3'- uagCCCGcUGU-ACUGCUGUGCCA-UCA- -5' |
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| 12385 | 3' | -55.1 | NC_003324.1 | + | 13718 | 0.67 | 0.676433 |
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Target: 5'- cGUCGgacGGCGGCAggcacugGAUGACGCGGg--- -3' miRNA: 3'- -UAGC---CCGCUGUa------CUGCUGUGCCauca -5' |
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| 12385 | 3' | -55.1 | NC_003324.1 | + | 14901 | 0.66 | 0.698201 |
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Target: 5'- --aGGGCGACGcgcuCGACGCGGUc-- -3' miRNA: 3'- uagCCCGCUGUacu-GCUGUGCCAuca -5' |
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| 12385 | 3' | -55.1 | NC_003324.1 | + | 17488 | 0.71 | 0.423009 |
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Target: 5'- --aGGGCGACGUGGC-ACGCGGa--- -3' miRNA: 3'- uagCCCGCUGUACUGcUGUGCCauca -5' |
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| 12385 | 3' | -55.1 | NC_003324.1 | + | 24993 | 0.76 | 0.229037 |
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Target: 5'- -cCGGGCGGCGUGcUGGCgAUGGUGGUg -3' miRNA: 3'- uaGCCCGCUGUACuGCUG-UGCCAUCA- -5' |
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| 12385 | 3' | -55.1 | NC_003324.1 | + | 30136 | 0.67 | 0.653397 |
|
Target: 5'- uGUCGcgaccGGCGGCGUGaugggcgGCGGCAUgGGUGGUg -3' miRNA: 3'- -UAGC-----CCGCUGUAC-------UGCUGUG-CCAUCA- -5' |
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| 12385 | 3' | -55.1 | NC_003324.1 | + | 40653 | 1.06 | 0.001802 |
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Target: 5'- cAUCGGGCGACAUGACGACACGGUAGUg -3' miRNA: 3'- -UAGCCCGCUGUACUGCUGUGCCAUCA- -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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