miRNA: 3'- -GGaAUGACGGUggUUGUCGcGGUaau -5'
miRNA: 3'- -GGaAUGAC--GGUgGUUGUCGCGGUaau -5'
miRNA: 3'- -GGaaugACGGUGGUUG---UCGCGGuaau -5'
miRNA: 3'- gGAAUGACGG---UgGUUGUC-GCGG---UAAU- -5'
miRNA: 3'- ggaAUGac-GGugGUUGUCGCGGUaau -5'
Results 21 - 25 of 25 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 | |||||||
| 27372 | 5' | -51.5 | NC_005857.1 | + | 12071 | 0.66 | 0.848802 |
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Target: 5'- cCCgUACUGCCAgaAGCAGCuCCGg-- -3' miRNA: 3'- -GGaAUGACGGUggUUGUCGcGGUaau -5' |
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| 27372 | 5' | -51.5 | NC_005857.1 | + | 9672 | 0.66 | 0.830428 |
|
Target: 5'- uCCgUACUGguUCAaCGACAGCGCCAg-- -3' miRNA: 3'- -GGaAUGAC--GGUgGUUGUCGCGGUaau -5' |
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| 27372 | 5' | -51.5 | NC_005857.1 | + | 9539 | 0.66 | 0.874474 |
|
Target: 5'- gCCga--UGCCAUCAGCuuaAGCGCCu--- -3' miRNA: 3'- -GGaaugACGGUGGUUG---UCGCGGuaau -5' |
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| 27372 | 5' | -51.5 | NC_005857.1 | + | 5509 | 0.66 | 0.874474 |
|
Target: 5'- gCUUACUGCCuugGgCGGCAGaCGCUgcaGUUAa -3' miRNA: 3'- gGAAUGACGG---UgGUUGUC-GCGG---UAAU- -5' |
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| 27372 | 5' | -51.5 | NC_005857.1 | + | 3222 | 0.67 | 0.801183 |
|
Target: 5'- --aUACccuCCugCAGCAGCGCCAc-- -3' miRNA: 3'- ggaAUGac-GGugGUUGUCGCGGUaau -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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