miRNA: 3'- -CCaCUACCUgAGac-CCACGAGCUGaa -5'
miRNA: 3'- -CCACU---------ACCUGA-GACCCaCGaGCUGaa -5'
miRNA: 3'- -CCACUACCUGa-----GACC-CaCGAG-------CUGAA- -5'
miRNA: 3'- -CCACUACCUGAGACCCACGAGCUGAA- -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# |
P value
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| Predicted miRNA align pattern | |||||||
| 11507 | 5' | -54.7 | NC_003085.1 | + | 39926 | 0.67 | 0.657039 |
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Target: 5'- uGG-GAUGGGgUCgcuGGUGCUUGGCg- -3' miRNA: 3'- -CCaCUACCUgAGac-CCACGAGCUGaa -5' |
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| 11507 | 5' | -54.7 | NC_003085.1 | + | 19314 | 0.67 | 0.645834 |
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Target: 5'- gGGUGAcguccugcgUGGGCUgCUGGG-GC-CGGCg- -3' miRNA: 3'- -CCACU---------ACCUGA-GACCCaCGaGCUGaa -5' |
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| 11507 | 5' | -54.7 | NC_003085.1 | + | 5621 | 0.68 | 0.566508 |
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Target: 5'- cGGUGGUGGACgggcugCUGGaGcGCUCgcccuguGACUUg -3' miRNA: 3'- -CCACUACCUGa-----GACC-CaCGAG-------CUGAA- -5' |
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| 11507 | 5' | -54.7 | NC_003085.1 | + | 3007 | 1.07 | 0.001303 |
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Target: 5'- uGGUGAUGGACUCUGGGUGCUCGACUUc -3' miRNA: 3'- -CCACUACCUGAGACCCACGAGCUGAA- -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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