miRNA: 3'- -CCCGCGCGuAGAUGaGG--CC-AC--GGGCU- -5'
miRNA: 3'- cCCGCgCGUAGa---UGaGgCCACGGgCU- -5'
miRNA: 3'- cCCGCGCGua-GAUG---------------AGGCCACG-GGCu -5'
miRNA: 3'- -CCCG-CGCGUaGaugAGGCCA---CGGGCu -5'
Results 21 - 24 of 24 are showing below:
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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 | |||||||
| 11523 | 5' | -59.8 | NC_003085.1 | + | 43197 | 0.66 | 0.434597 |
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Target: 5'- uGGGCGCGC-UCUACgCCaaGGcUGuuCCCGGc -3' miRNA: 3'- -CCCGCGCGuAGAUGaGG--CC-AC--GGGCU- -5' |
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| 11523 | 5' | -59.8 | NC_003085.1 | + | 22826 | 0.66 | 0.434597 |
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Target: 5'- cGGCGgGCGUCgucgGCgCgGGUGUCgGAg -3' miRNA: 3'- cCCGCgCGUAGa---UGaGgCCACGGgCU- -5' |
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| 11523 | 5' | -59.8 | NC_003085.1 | + | 18969 | 0.66 | 0.438361 |
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Target: 5'- uGGCGCGCuucCUGCgcagcaacgccuucgUCCGGUGCaUCGu -3' miRNA: 3'- cCCGCGCGua-GAUG---------------AGGCCACG-GGCu -5' |
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| 11523 | 5' | -59.8 | NC_003085.1 | + | 48945 | 0.66 | 0.48293 |
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Target: 5'- aGGGCaGCGCG-Ca--UCCGGUccgGCCCGc -3' miRNA: 3'- -CCCG-CGCGUaGaugAGGCCA---CGGGCu -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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