miRNA: 3'- uaGCGCCGGU-----AGCAa-CGGCG----GCGGGU- -5'
miRNA: 3'- -UAGCGCCgGUAGCaACGGCgGCG--GGU- -5'
miRNA: 3'- uagCGCCGGUAGCaACGGcgGCGGGu -5'
miRNA: 3'- -UAgCGCCGGU--AGCAa----CGGCgGCGGGu -5'
miRNA: 3'- uagCGCCGGUa------------GCAACGGCGGCGGGu -5'
Results 41 - 45 of 45 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 | |||||||
| 26706 | 5' | -62.3 | NC_005808.1 | + | 33813 | 0.7 | 0.14449 |
|
Target: 5'- -gCGCGGCCGacccaUCGUgcGCCGCgugcUGCCCGa -3' miRNA: 3'- uaGCGCCGGU-----AGCAa-CGGCG----GCGGGU- -5' |
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| 26706 | 5' | -62.3 | NC_005808.1 | + | 37677 | 0.69 | 0.16538 |
|
Target: 5'- cGUCGCGGgCAUCGcUGCCGaCGUuuCCAc -3' miRNA: 3'- -UAGCGCCgGUAGCaACGGCgGCG--GGU- -5' |
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| 26706 | 5' | -62.3 | NC_005808.1 | + | 5155 | 0.69 | 0.179181 |
|
Target: 5'- --gGCGGCCGUCGcUGCUcaCGCCCu -3' miRNA: 3'- uagCGCCGGUAGCaACGGcgGCGGGu -5' |
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| 26706 | 5' | -62.3 | NC_005808.1 | + | 8213 | 0.69 | 0.179181 |
|
Target: 5'- cAUgGCGGCCAguUCGUgcgcgGCCG-UGCCCu -3' miRNA: 3'- -UAgCGCCGGU--AGCAa----CGGCgGCGGGu -5' |
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| 26706 | 5' | -62.3 | NC_005808.1 | + | 1832 | 0.65 | 0.303639 |
|
Target: 5'- --aGUGGCCGaagaaagccaggaUGUUGCCGCCGUCUu -3' miRNA: 3'- uagCGCCGGUa------------GCAACGGCGGCGGGu -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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