miRNA: 3'- -UAGCGaCCGUAA--UAGuCGGUCGaACU- -5'
miRNA: 3'- uaGCGACCGUaauagu-CGGUCGAACU- -5'
miRNA: 3'- uaGCGACCGUaau-------AGUCGGUCGA---ACU- -5'
miRNA: 3'- -UAGCGACCGUaAUAGUCG-GU--CGAACU- -5'
miRNA: 3'- -UAGCGACCGUAAUAGUCGGUCGAACU- -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 | |||||||
| 13563 | 5' | -52 | NC_003444.1 | + | 22827 | 0.66 | 0.723401 |
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Target: 5'- gAUCGC-GGCGUUcgGUU-GCCAGCaUGAu -3' miRNA: 3'- -UAGCGaCCGUAA--UAGuCGGUCGaACU- -5' |
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| 13563 | 5' | -52 | NC_003444.1 | + | 8799 | 0.66 | 0.686133 |
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Target: 5'- -cUGCUGGCAaccuaccGUCAGCUUGAg -3' miRNA: 3'- uaGCGACCGUaauagu-CGGUCGAACU- -5' |
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| 13563 | 5' | -52 | NC_003444.1 | + | 7257 | 0.67 | 0.662497 |
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Target: 5'- -cUGCUGGCGgguaucgucuUCGGUCAGCUcgcUGAu -3' miRNA: 3'- uaGCGACCGUaau-------AGUCGGUCGA---ACU- -5' |
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| 13563 | 5' | -52 | NC_003444.1 | + | 12155 | 0.74 | 0.273652 |
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Target: 5'- cGUCGUUGGUAaUGUCAGCaCAauGCUUGGg -3' miRNA: 3'- -UAGCGACCGUaAUAGUCG-GU--CGAACU- -5' |
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| 13563 | 5' | -52 | NC_003444.1 | + | 28409 | 1.07 | 0.001185 |
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Target: 5'- gAUCGCUGGCAUUAUCAGCCAGCUUGAu -3' miRNA: 3'- -UAGCGACCGUAAUAGUCGGUCGAACU- -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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