miRNA: 3'- -GUCAGGGaCCUcCAGcGCCGGCgGUA- -5'
miRNA: 3'- gUCAgg-GACCUCCaGCGCCG-GCGGUa -5'
miRNA: 3'- gUCAGGGACCUccaGcGCCGGCGGUa -5'
miRNA: 3'- -GUCa--GGGACCU---CCAGCgCCGGCGGUA- -5'
miRNA: 3'- -GUCAGGGACCUCCAGCGCCGGCGGUA- -5'
Results 1 - 5 of 5 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 | |||||||
| 23106 | 3' | -63.2 | NC_005178.1 | + | 3410 | 0.66 | 0.244962 |
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Target: 5'- cCAGUCCCcGGAaGUCcCGGCCGgUGUa -3' miRNA: 3'- -GUCAGGGaCCUcCAGcGCCGGCgGUA- -5' |
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| 23106 | 3' | -63.2 | NC_005178.1 | + | 12923 | 0.66 | 0.226781 |
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Target: 5'- uGGUgggCUGGAGGaCGUGGCgCGCCAg -3' miRNA: 3'- gUCAgg-GACCUCCaGCGCCG-GCGGUa -5' |
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| 23106 | 3' | -63.2 | NC_005178.1 | + | 9169 | 0.68 | 0.169669 |
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Target: 5'- uGGUCCCUGGA---CcUGGCCGCCAc -3' miRNA: 3'- gUCAGGGACCUccaGcGCCGGCGGUa -5' |
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| 23106 | 3' | -63.2 | NC_005178.1 | + | 14949 | 0.75 | 0.049515 |
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Target: 5'- aCAGgcgUCCUGGAcguGGUCG-GGCCGCCAUc -3' miRNA: 3'- -GUCa--GGGACCU---CCAGCgCCGGCGGUA- -5' |
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| 23106 | 3' | -63.2 | NC_005178.1 | + | 12797 | 1.05 | 0.000182 |
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Target: 5'- gCAGUCCCUGGAGGUCGCGGCCGCCAUg -3' miRNA: 3'- -GUCAGGGACCUCCAGCGCCGGCGGUA- -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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