miRNA: 3'- -GGAAcAUACGG--ACGCAGGagaa -5'
miRNA: 3'- -GGAac---AUAcGGACGCAGGAGAa -5'
miRNA: 3'- -GGAaCauaCGGACGCAGGAGAa -5'
miRNA: 3'- gGAAcAUACGGACGcAGGAGaa -5'
miRNA: 3'- -GGAACAUACGGAC-GCAGGaGAA- -5'
miRNA: 3'- -GGAACAUACGGACGCAGGAGAA- -5'
Results 1 - 6 of 6 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 | |||||||
| 33375 | 5' | -46.6 | NC_007605.1 | + | 65880 | 0.66 | 0.999516 |
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Target: 5'- cCCUUcUAUGCCaaUGCGUCCa--- -3' miRNA: 3'- -GGAAcAUACGG--ACGCAGGagaa -5' |
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| 33375 | 5' | -46.6 | NC_007605.1 | + | 155361 | 0.68 | 0.996912 |
|
Target: 5'- uCCUgcagaUAU-CCUGCGUCCUCUg -3' miRNA: 3'- -GGAac---AUAcGGACGCAGGAGAa -5' |
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| 33375 | 5' | -46.6 | NC_007605.1 | + | 68787 | 0.69 | 0.993951 |
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Target: 5'- cCCUgGgg-GCCUGUGUCUUCUg -3' miRNA: 3'- -GGAaCauaCGGACGCAGGAGAa -5' |
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| 33375 | 5' | -46.6 | NC_007605.1 | + | 166874 | 0.69 | 0.993951 |
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Target: 5'- aCUUuUAUGCCUGC-UCCUCa- -3' miRNA: 3'- gGAAcAUACGGACGcAGGAGaa -5' |
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| 33375 | 5' | -46.6 | NC_007605.1 | + | 139809 | 0.8 | 0.65204 |
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Target: 5'- uCCUUGUAUGCCUGgUGUCCcCUUa -3' miRNA: 3'- -GGAACAUACGGAC-GCAGGaGAA- -5' |
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| 33375 | 5' | -46.6 | NC_007605.1 | + | 139969 | 1.03 | 0.0346 |
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Target: 5'- aCCUUGUAUGCCUGCGUCCUCUUa -3' miRNA: 3'- -GGAACAUACGGACGCAGGAGAA- -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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