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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 11679 | 3' | -51.1 | NC_003102.1 | + | 110600 | 1.09 | 0.007717 |
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Target: 5'- cGGUCCCGUCUCGAUCAGUAUGCGUUUg -3' miRNA: 3'- -CCAGGGCAGAGCUAGUCAUACGCAAA- -5' |
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| 11679 | 3' | -51.1 | NC_003102.1 | + | 39541 | 0.72 | 0.830846 |
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Target: 5'- cGUUCCGUCUCGAUCAaacuuGUG-GCGUc- -3' miRNA: 3'- cCAGGGCAGAGCUAGU-----CAUaCGCAaa -5' |
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| 11679 | 3' | -51.1 | NC_003102.1 | + | 11048 | 0.72 | 0.839437 |
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Target: 5'- cGGUCUCGUCUCGucggcCAGUcgcUGCGUa- -3' miRNA: 3'- -CCAGGGCAGAGCua---GUCAu--ACGCAaa -5' |
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| 11679 | 3' | -51.1 | NC_003102.1 | + | 128659 | 0.69 | 0.945244 |
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Target: 5'- --aCCCGUCUCGAUCGcuucuuGUAUGgCGg-- -3' miRNA: 3'- ccaGGGCAGAGCUAGU------CAUAC-GCaaa -5' |
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| 11679 | 3' | -51.1 | NC_003102.1 | + | 23640 | 0.68 | 0.968417 |
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Target: 5'- cGG-CCCGUUacgUCGAUCAGg--GCGg-- -3' miRNA: 3'- -CCaGGGCAG---AGCUAGUCauaCGCaaa -5' |
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| 11679 | 3' | -51.1 | NC_003102.1 | + | 21464 | 0.66 | 0.98545 |
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Target: 5'- uGUUaCCaUCUCGAUCGGUcgGCGg-- -3' miRNA: 3'- cCAG-GGcAGAGCUAGUCAuaCGCaaa -5' |
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| 11679 | 3' | -51.1 | NC_003102.1 | + | 110063 | 0.66 | 0.991338 |
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Target: 5'- --aCCCGUCUcCGGUC-GUGUGCu--- -3' miRNA: 3'- ccaGGGCAGA-GCUAGuCAUACGcaaa -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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