miRNA: 3'- cuaCGCGGCGGCCa---GCUgcCGUUCUU- -5'
miRNA: 3'- -CUACGCGG-----------CGGCCAgcugCCGUUCUu -5'
miRNA: 3'- cuacgCGGCGGCC--AGCUGCCGuucuu -5'
miRNA: 3'- cuACGC---GGCGGccAGCUGCCGUUCUU- -5'
Results 21 - 24 of 24 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 | |||||||
| 12484 | 3' | -59.3 | NC_003324.1 | + | 8264 | 0.68 | 0.370516 |
|
Target: 5'- --cGCGCCGCCGGgcagUGA--GCAGGGAc -3' miRNA: 3'- cuaCGCGGCGGCCa---GCUgcCGUUCUU- -5' |
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| 12484 | 3' | -59.3 | NC_003324.1 | + | 4269 | 0.66 | 0.49244 |
|
Target: 5'- aGAUGCGCCacggcguuuccGCCGGU----GGCAAGAu -3' miRNA: 3'- -CUACGCGG-----------CGGCCAgcugCCGUUCUu -5' |
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| 12484 | 3' | -59.3 | NC_003324.1 | + | 2507 | 0.66 | 0.452805 |
|
Target: 5'- ----aGCCGCCGGcgUCGGCGGCu---- -3' miRNA: 3'- cuacgCGGCGGCC--AGCUGCCGuucuu -5' |
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| 12484 | 3' | -59.3 | NC_003324.1 | + | 1084 | 0.69 | 0.337367 |
|
Target: 5'- -cUGCGguaCCGCU--UCGACGGCAAGGAg -3' miRNA: 3'- cuACGC---GGCGGccAGCUGCCGUUCUU- -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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