miRNA: 3'- cCCGUAGG-------------CG--------GCUGCGUC--------------UGCCGCGC- -5'
miRNA: 3'- ccCGUAG-GCGGCUGcGUCUGC-CGCGc -5'
miRNA: 3'- -CCCGUAGGCGGCUGCGUCUGCCGCgC- -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 | |||||||
| 22407 | 5' | -61.5 | NC_005056.1 | + | 6414 | 0.66 | 0.300261 |
|
Target: 5'- uGGCAUCCacgccgcgguaacGCucauaaagCGACGCGGucgccaucgcacacACGGCGCGc -3' miRNA: 3'- cCCGUAGG-------------CG--------GCUGCGUC--------------UGCCGCGC- -5' |
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| 22407 | 5' | -61.5 | NC_005056.1 | + | 20483 | 0.66 | 0.318364 |
|
Target: 5'- -uGCAUCaUGCUGGCaCGGGCGcGCGCa -3' miRNA: 3'- ccCGUAG-GCGGCUGcGUCUGC-CGCGc -5' |
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| 22407 | 5' | -61.5 | NC_005056.1 | + | 9755 | 1.05 | 0.000312 |
|
Target: 5'- aGGGCAUCCGCCGACGCAGACGGCGgGg -3' miRNA: 3'- -CCCGUAGGCGGCUGCGUCUGCCGCgC- -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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