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miRNA: 3'- -GUGGUa--GCacaaCAGGCCGuCCUUCa -5'
miRNA: 3'- -GUgGUAGCACaACaGg--CCGUCCUUCA- -5'
miRNA: 3'- gUGGUAGCAcaACAGgCCGUCCUUca -5'
miRNA: 3'- -GUGGUAGCACAACAGGCCGUCCUUCA- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 2337 | 3' | -53.7 | NC_001416.1 | + | 3785 | 0.66 | 0.774192 |
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Target: 5'- aCGCCGcagCGccg-GUCCGGCuGGGAGg -3' miRNA: 3'- -GUGGUa--GCacaaCAGGCCGuCCUUCa -5' |
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| 2337 | 3' | -53.7 | NC_001416.1 | + | 27883 | 0.68 | 0.643105 |
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Target: 5'- aCAgUAUCGUGaUGaCagaGGCAGGGAGUg -3' miRNA: 3'- -GUgGUAGCACaACaGg--CCGUCCUUCA- -5' |
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| 2337 | 3' | -53.7 | NC_001416.1 | + | 19070 | 0.72 | 0.389775 |
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Target: 5'- uGCCGUCGU--UGUCgGGCGGGGAu- -3' miRNA: 3'- gUGGUAGCAcaACAGgCCGUCCUUca -5' |
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| 2337 | 3' | -53.7 | NC_001416.1 | + | 6995 | 1.07 | 0.001759 |
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Target: 5'- gCACCAUCGUGUUGUCCGGCAGGAAGUu -3' miRNA: 3'- -GUGGUAGCACAACAGGCCGUCCUUCA- -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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