miRNA: 3'- aCUCgGGGUCGuaUCGUCaCUCGGGG- -5'
miRNA: 3'- -ACUCGGGgUCGUA---UCguCaCUCGGGg -5'
miRNA: 3'- -ACUCGGGGUCG---------UAUCGU-CACUCGggg -5'
miRNA: 3'- aCUCGgGGUCGUAUcGUCa-CUCG---GGG- -5'
miRNA: 3'- aCUCGGgGUCGUa----------UCGUCa------CUCGGGG- -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 | |||||||
| 2622 | 3' | -58.4 | NC_001491.2 | + | 1441 | 0.68 | 0.654802 |
|
Target: 5'- cGGGgCUCGGC--GGCGGgGAGCCUCg -3' miRNA: 3'- aCUCgGGGUCGuaUCGUCaCUCGGGG- -5' |
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| 2622 | 3' | -58.4 | NC_001491.2 | + | 67572 | 0.68 | 0.675133 |
|
Target: 5'- cUGGGCCUgGGCGUuugGGguGaGAGCCUg -3' miRNA: 3'- -ACUCGGGgUCGUA---UCguCaCUCGGGg -5' |
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| 2622 | 3' | -58.4 | NC_001491.2 | + | 114252 | 0.68 | 0.685251 |
|
Target: 5'- cUGGGCCCUGGCcagcugcguGUGGCGuGUGAGCa-- -3' miRNA: 3'- -ACUCGGGGUCG---------UAUCGU-CACUCGggg -5' |
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| 2622 | 3' | -58.4 | NC_001491.2 | + | 11283 | 0.67 | 0.705346 |
|
Target: 5'- aGGGCgCCAGCGUA-CAGggGAGUguaCCCa -3' miRNA: 3'- aCUCGgGGUCGUAUcGUCa-CUCG---GGG- -5' |
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| 2622 | 3' | -58.4 | NC_001491.2 | + | 105131 | 0.66 | 0.800669 |
|
Target: 5'- gGGGCCgCGGCGggggucucuacGGCAGgcuuuggGGGCUCCu -3' miRNA: 3'- aCUCGGgGUCGUa----------UCGUCa------CUCGGGG- -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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