miRNA: 3'- -ACUACCGCCcCUACUgCGGC-CGUaag -5'
miRNA: 3'- -ACUA---CCGCCCCUAC------------UGCGGCCGuaAG- -5'
miRNA: 3'- acUACCGCC-CCUa---CugCGGCCGuaAG- -5'
miRNA: 3'- acuaCCGCCCCUa--CUGCG-GCCGU--AAG- -5'
miRNA: 3'- aCuACCG-----CCC-CuaCugCGGCCGUAag -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 26623 | 5' | -57.5 | NC_005357.1 | + | 10125 | 0.72 | 0.232501 |
|
Target: 5'- uUGAUGGCGGcGAUGAgGUCGcGCAa-- -3' miRNA: 3'- -ACUACCGCCcCUACUgCGGC-CGUaag -5' |
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| 26623 | 5' | -57.5 | NC_005357.1 | + | 4621 | 0.73 | 0.182571 |
|
Target: 5'- aUGAUgucGGCGGGGAUGcugggccacgcuGCGUCGGCcaUCg -3' miRNA: 3'- -ACUA---CCGCCCCUAC------------UGCGGCCGuaAG- -5' |
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| 26623 | 5' | -57.5 | NC_005357.1 | + | 31899 | 0.74 | 0.154776 |
|
Target: 5'- -cGUGGCGGcGGAaagcGugGCCGGCggUCa -3' miRNA: 3'- acUACCGCC-CCUa---CugCGGCCGuaAG- -5' |
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| 26623 | 5' | -57.5 | NC_005357.1 | + | 32420 | 0.74 | 0.150533 |
|
Target: 5'- ---gGGCGGGGGccgGGCGCgCGGCAcuUUCg -3' miRNA: 3'- acuaCCGCCCCUa--CUGCG-GCCGU--AAG- -5' |
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| 26623 | 5' | -57.5 | NC_005357.1 | + | 21089 | 0.66 | 0.522663 |
|
Target: 5'- cGuUGGCaaccuGGGcGcgGugGCCGGCAUc- -3' miRNA: 3'- aCuACCG-----CCC-CuaCugCGGCCGUAag -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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