miRNA: 3'- aCACCA------CGAGu-----GUCAGCuGCAUCAGU- -5'
miRNA: 3'- acacCACGAGUgucAGCUGCAUCAGu -5'
miRNA: 3'- aCACCa--CGAGU--------------GUCag-CUGCAUCAGU- -5'
miRNA: 3'- acACCACG------AGUGUcaGCUGCAUCAGU- -5'
miRNA: 3'- -ACACCACGAGUGUCAGCUGCAUCAGU- -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 | |||||||
| 18248 | 3' | -52.5 | NC_004681.1 | + | 50511 | 0.66 | 0.919633 |
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Target: 5'- gGUGGUccugggGUUCcaguacCAGUCGcCGUAGUCGu -3' miRNA: 3'- aCACCA------CGAGu-----GUCAGCuGCAUCAGU- -5' |
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| 18248 | 3' | -52.5 | NC_004681.1 | + | 4504 | 0.66 | 0.900224 |
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Target: 5'- ---uGUGCUCGacuUCGACGUGGUCu -3' miRNA: 3'- acacCACGAGUgucAGCUGCAUCAGu -5' |
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| 18248 | 3' | -52.5 | NC_004681.1 | + | 35072 | 0.68 | 0.843206 |
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Target: 5'- aGUGGcagGCUCGgugcgcuccugaucCAGgaaGACGUAGUCGc -3' miRNA: 3'- aCACCa--CGAGU--------------GUCag-CUGCAUCAGU- -5' |
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| 18248 | 3' | -52.5 | NC_004681.1 | + | 68356 | 0.68 | 0.800091 |
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Target: 5'- -uUGGUGCgaaacgUCGCA--CGGCGUAGUCGa -3' miRNA: 3'- acACCACG------AGUGUcaGCUGCAUCAGU- -5' |
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| 18248 | 3' | -52.5 | NC_004681.1 | + | 777 | 1.1 | 0.002518 |
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Target: 5'- aUGUGGUGCUCACAGUCGACGUAGUCAg -3' miRNA: 3'- -ACACCACGAGUGUCAGCUGCAUCAGU- -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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