miRNA: 3'- -UUCGagaGCUGCAUCA-------------GGUCGUGCGa -5'
miRNA: 3'- -UUCGAG-----------AGCUGCaUCaGGUCGUgCGA- -5'
miRNA: 3'- uuCGAGaGCUGCA---UCAG-GUCG--UGCGa -5'
miRNA: 3'- uUCGAGAgCUGCauCAGgUCGUGCGa -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 | |||||||
| 10810 | 5' | -55.6 | NC_002794.1 | + | 93007 | 0.67 | 0.899026 |
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Target: 5'- cAAGCg--CGACGUGGUgcagcggcggaacCCGGUGCGCg -3' miRNA: 3'- -UUCGagaGCUGCAUCA-------------GGUCGUGCGa -5' |
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| 10810 | 5' | -55.6 | NC_002794.1 | + | 115816 | 0.66 | 0.923463 |
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Target: 5'- gAAGCUCuuccgccuggaUCGGCGgGGcCCGGCGgGCUc -3' miRNA: 3'- -UUCGAG-----------AGCUGCaUCaGGUCGUgCGA- -5' |
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| 10810 | 5' | -55.6 | NC_002794.1 | + | 78424 | 0.66 | 0.928816 |
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Target: 5'- -cGCUCcCGGCGUcacGGUCgCGGCggACGCg -3' miRNA: 3'- uuCGAGaGCUGCA---UCAG-GUCG--UGCGa -5' |
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| 10810 | 5' | -55.6 | NC_002794.1 | + | 128532 | 0.66 | 0.938807 |
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Target: 5'- uGGCUCUgGACG--GUCgGGUGCGCc -3' miRNA: 3'- uUCGAGAgCUGCauCAGgUCGUGCGa -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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