miRNA: 3'- -GGUAGa----GGGAGGAGGUGgaCAGG-GUC- -5'
miRNA: 3'- gguagAGGGAGGAGGUGGac-AGGGUc -5'
miRNA: 3'- -GgUAGaGGGAGGAGgUGGAcAGGGUC- -5'
miRNA: 3'- -GGUAGAGGG------------AGGA-----GGUGGa----CAGGGUC- -5'
miRNA: 3'- -GGUAGAGGGAGGAGGUGGACAGGGUC- -5'
Results 21 - 25 of 25 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 | |||||||
| 28386 | 5' | -57.8 | NC_005946.1 | + | 9358 | 0.71 | 0.470167 |
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Target: 5'- uCUAUCcugcaCCCUCCUCCACa-GUCCaCAGu -3' miRNA: 3'- -GGUAGa----GGGAGGAGGUGgaCAGG-GUC- -5' |
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| 28386 | 5' | -57.8 | NC_005946.1 | + | 1932 | 0.74 | 0.326109 |
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Target: 5'- ----gUCCCUCCUCCGCCgccUCCCAa -3' miRNA: 3'- gguagAGGGAGGAGGUGGac-AGGGUc -5' |
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| 28386 | 5' | -57.8 | NC_005946.1 | + | 89216 | 0.76 | 0.251805 |
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Target: 5'- aCgGUC-CCCUCCUCgACCUuUCCCGGa -3' miRNA: 3'- -GgUAGaGGGAGGAGgUGGAcAGGGUC- -5' |
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| 28386 | 5' | -57.8 | NC_005946.1 | + | 8822 | 0.77 | 0.222915 |
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Target: 5'- aCCGUCUCCCccgucuuccagcUCCUcagaaCCACCgacggGUCCCGGg -3' miRNA: 3'- -GGUAGAGGG------------AGGA-----GGUGGa----CAGGGUC- -5' |
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| 28386 | 5' | -57.8 | NC_005946.1 | + | 48708 | 1.1 | 0.001235 |
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Target: 5'- cCCAUCUCCCUCCUCCACCUGUCCCAGu -3' miRNA: 3'- -GGUAGAGGGAGGAGGUGGACAGGGUC- -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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