miRNA: 3'- cuCCUCCUGG----UCGGUGgACGGUUCUU- -5'
miRNA: 3'- cuCCUCCUGGU------CGG---UGGACGGUucuu -5'
miRNA: 3'- -CUCCUCCUgGUCGgUGGACGGuu-CUu -5'
Results 41 - 43 of 43 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 14641 | 5' | -58.6 | NC_003521.1 | + | 66737 | 0.68 | 0.761674 |
|
Target: 5'- -uGGAGGACCuccgGGCCAU-UGCUGAGGAg -3' miRNA: 3'- cuCCUCCUGG----UCGGUGgACGGUUCUU- -5' |
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| 14641 | 5' | -58.6 | NC_003521.1 | + | 13216 | 0.67 | 0.788995 |
|
Target: 5'- -uGGAGGGCCGaccggcGCCcaaGCCUGCCAu--- -3' miRNA: 3'- cuCCUCCUGGU------CGG---UGGACGGUucuu -5' |
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| 14641 | 5' | -58.6 | NC_003521.1 | + | 67076 | 0.74 | 0.391763 |
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Target: 5'- aGAGGAGGAgCAGCaGCCUGCCucuGGc -3' miRNA: 3'- -CUCCUCCUgGUCGgUGGACGGuu-CUu -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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