miRNA: 3'- -CC-GACGCa---GU-------------CCCGCAGUcGCGCAGC- -5'
miRNA: 3'- -CCGACGcaGUCCCGCag-UCGCGCaGC- -5'
miRNA: 3'- cCGACgCAGUCC-----------CGCa--GUCGCGCAGC- -5'
Results 21 - 23 of 23 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 | |||||||
| 26650 | 3' | -59.9 | NC_005808.1 | + | 16142 | 0.69 | 0.258382 |
|
Target: 5'- aGGaCUGCGgccgCAcgcugauggugguGGGCGUUAcCGCGUCGg -3' miRNA: 3'- -CC-GACGCa---GU-------------CCCGCAGUcGCGCAGC- -5' |
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| 26650 | 3' | -59.9 | NC_005808.1 | + | 40008 | 0.71 | 0.185028 |
|
Target: 5'- cGGUUGCaaCAGGGCGgcaAGCGCG-CGc -3' miRNA: 3'- -CCGACGcaGUCCCGCag-UCGCGCaGC- -5' |
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| 26650 | 3' | -59.9 | NC_005808.1 | + | 8826 | 0.72 | 0.166323 |
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Target: 5'- uGCUGgGUCGGGccagccgcaacGCGggcCAGCGCGUUGg -3' miRNA: 3'- cCGACgCAGUCC-----------CGCa--GUCGCGCAGC- -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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