miRNA: 3'- -UCGUAaGGUCCG---CU--CCUGCau-CUCCU- -5'
miRNA: 3'- -UCGUa--AgGUCCgc-UCCugCAUCUCCU- -5'
miRNA: 3'- -UC-GUAAGGuc--CGCuCCUGCAUCUCCu -5'
miRNA: 3'- -UCGUAAGGUCCGCUCCUGCAUCUCCU- -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# |
P value
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| Predicted miRNA align pattern | |||||||
| 30301 | 5' | -55 | NC_006324.1 | + | 11378 | 0.66 | 0.594052 |
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Target: 5'- gAGCGUgCCAGGUauaGAauGGGCGcauGAGGAu -3' miRNA: 3'- -UCGUAaGGUCCG---CU--CCUGCau-CUCCU- -5' |
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| 30301 | 5' | -55 | NC_006324.1 | + | 16905 | 0.67 | 0.526573 |
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Target: 5'- cAGCAaccUgCAGGaaaAGGugGUAGAGGGg -3' miRNA: 3'- -UCGUa--AgGUCCgc-UCCugCAUCUCCU- -5' |
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| 30301 | 5' | -55 | NC_006324.1 | + | 15150 | 0.67 | 0.515583 |
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Target: 5'- uAGaUAUUCCucgcGCGcGGACGUGGAGGc -3' miRNA: 3'- -UC-GUAAGGuc--CGCuCCUGCAUCUCCu -5' |
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| 30301 | 5' | -55 | NC_006324.1 | + | 24295 | 1.09 | 0.000508 |
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Target: 5'- gAGCAUUCCAGGCGAGGACGUAGAGGAg -3' miRNA: 3'- -UCGUAAGGUCCGCUCCUGCAUCUCCU- -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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