miRNA: 3'- gGUAGGg-GUGG-GUGGGaaga-GGUCCU- -5'
miRNA: 3'- -GGUaGGGGU----------GGGUGGGAagaGGUCcu -5'
miRNA: 3'- -GGUAGGGG----UGGGuggGAAGAGG-------UCCU- -5'
miRNA: 3'- ggUAGGG-GUGGGuGGGAa-----GAGGUCcu -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 | |||||||
| 13288 | 3' | -58.4 | NC_003409.1 | + | 112144 | 0.66 | 0.786968 |
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Target: 5'- gCAUCCggCACCaCGCCCgggggCCAGGAc -3' miRNA: 3'- gGUAGGg-GUGG-GUGGGaaga-GGUCCU- -5' |
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| 13288 | 3' | -58.4 | NC_003409.1 | + | 121859 | 0.66 | 0.795922 |
|
Target: 5'- cCCAcCCCCAcauccuuccuCCCACCCUg--CCAGu- -3' miRNA: 3'- -GGUaGGGGU----------GGGUGGGAagaGGUCcu -5' |
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| 13288 | 3' | -58.4 | NC_003409.1 | + | 34553 | 0.66 | 0.803859 |
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Target: 5'- aUCGUCCCCggggACCCucaCUUCUCCguugacaGGGAc -3' miRNA: 3'- -GGUAGGGG----UGGGuggGAAGAGG-------UCCU- -5' |
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| 13288 | 3' | -58.4 | NC_003409.1 | + | 100973 | 0.66 | 0.821892 |
|
Target: 5'- -aAUCCCgCACCC-CCCUggcaaaCUCCGGu- -3' miRNA: 3'- ggUAGGG-GUGGGuGGGAa-----GAGGUCcu -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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