miRNA: 3'- cCCGCGcg--UAGAUGa----------GGCCACGGGCU- -5'
miRNA: 3'- cCCGCGCG---UAGAUGa--GGCCACGg--GCU- -5'
miRNA: 3'- -CCCGCGCGUAGAUGAGGCCACGGGCU- -5'
miRNA: 3'- cCCGCGCgUA----GAUGAGgCCa---CGGGCU- -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 | |||||||
| 11523 | 5' | -59.8 | NC_003085.1 | + | 9769 | 0.69 | 0.286531 |
|
Target: 5'- cGGCGCuccaGUCUGCagggacgccagCCGGUGCUCGAc -3' miRNA: 3'- cCCGCGcg--UAGAUGa----------GGCCACGGGCU- -5' |
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| 11523 | 5' | -59.8 | NC_003085.1 | + | 5576 | 0.68 | 0.331062 |
|
Target: 5'- cGGUGCGCcacGUCUACgccCUGGUGCggaCGAu -3' miRNA: 3'- cCCGCGCG---UAGAUGa--GGCCACGg--GCU- -5' |
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| 11523 | 5' | -59.8 | NC_003085.1 | + | 4411 | 1.1 | 0.000303 |
|
Target: 5'- uGGGCGCGCAUCUACUCCGGUGCCCGAc -3' miRNA: 3'- -CCCGCGCGUAGAUGAGGCCACGGGCU- -5' |
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| 11523 | 5' | -59.8 | NC_003085.1 | + | 785 | 0.67 | 0.380483 |
|
Target: 5'- aGGCGCGgGUggacCUGCUCaGGccgcGCCCGAg -3' miRNA: 3'- cCCGCGCgUA----GAUGAGgCCa---CGGGCU- -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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