miRNA display CGI


Results 1 - 20 of 35 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
10511 3' -56.8 NC_002687.1 + 214758 0.66 0.968614
Target:  5'- cACCaCcGGCGCAAGUGC--GAGGAa -3'
miRNA:   3'- cUGGaGuCCGCGUUCGCGuuCUCCUc -5'
10511 3' -56.8 NC_002687.1 + 241955 0.66 0.968614
Target:  5'- uGCUgCAcGGgGCAagagGGUGCGAGAGGGGc -3'
miRNA:   3'- cUGGaGU-CCgCGU----UCGCGUUCUCCUC- -5'
10511 3' -56.8 NC_002687.1 + 284439 0.66 0.968614
Target:  5'- cACCUUcgGGGuCGgAAGCgGUggGGGGAGa -3'
miRNA:   3'- cUGGAG--UCC-GCgUUCG-CGuuCUCCUC- -5'
10511 3' -56.8 NC_002687.1 + 86939 0.66 0.965624
Target:  5'- uGAgCUCAGGCGCcGGUGCGGGu---- -3'
miRNA:   3'- -CUgGAGUCCGCGuUCGCGUUCuccuc -5'
10511 3' -56.8 NC_002687.1 + 2670 0.66 0.96244
Target:  5'- aGGCCcaAGGUGCuauuGGCGgCAAuGGGGAGg -3'
miRNA:   3'- -CUGGagUCCGCGu---UCGC-GUU-CUCCUC- -5'
10511 3' -56.8 NC_002687.1 + 116823 0.66 0.959055
Target:  5'- uACgUCGuGGCGCAGGuCGauauugauGAGAGGAGg -3'
miRNA:   3'- cUGgAGU-CCGCGUUC-GCg-------UUCUCCUC- -5'
10511 3' -56.8 NC_002687.1 + 308677 0.66 0.959055
Target:  5'- aGACacaCGGGUcgaacGCAAGCGUggGGGGGa -3'
miRNA:   3'- -CUGga-GUCCG-----CGUUCGCGuuCUCCUc -5'
10511 3' -56.8 NC_002687.1 + 149807 0.66 0.959055
Target:  5'- aGCCUCGagcuugauGGCGCGAuUGCAgacuaugacGGAGGGGg -3'
miRNA:   3'- cUGGAGU--------CCGCGUUcGCGU---------UCUCCUC- -5'
10511 3' -56.8 NC_002687.1 + 27863 0.66 0.957645
Target:  5'- aGACCaaggggggggggAGGCGCcuuucGGGCGCAGGuGGAGu -3'
miRNA:   3'- -CUGGag----------UCCGCG-----UUCGCGUUCuCCUC- -5'
10511 3' -56.8 NC_002687.1 + 105920 0.67 0.93901
Target:  5'- -cCCUgcGGCaaCAAGCGCAAGAGGGa -3'
miRNA:   3'- cuGGAguCCGc-GUUCGCGUUCUCCUc -5'
10511 3' -56.8 NC_002687.1 + 27373 0.67 0.93901
Target:  5'- aACCaCAGGCGCAcgGGUGCcGGuAGGAu -3'
miRNA:   3'- cUGGaGUCCGCGU--UCGCGuUC-UCCUc -5'
10511 3' -56.8 NC_002687.1 + 5495 0.67 0.929485
Target:  5'- cGGCCUUgaucauGGGUGUGcuguGCGCGGGGGGAc -3'
miRNA:   3'- -CUGGAG------UCCGCGUu---CGCGUUCUCCUc -5'
10511 3' -56.8 NC_002687.1 + 173298 0.68 0.919084
Target:  5'- aGCCUCGauaGCGCGGGCGaCAgcAGAGGuAGa -3'
miRNA:   3'- cUGGAGUc--CGCGUUCGC-GU--UCUCC-UC- -5'
10511 3' -56.8 NC_002687.1 + 322328 0.68 0.919084
Target:  5'- uGCCUCaAGGCGCGcuguGCGCAAcuaguGAGGc- -3'
miRNA:   3'- cUGGAG-UCCGCGUu---CGCGUU-----CUCCuc -5'
10511 3' -56.8 NC_002687.1 + 48976 0.68 0.907809
Target:  5'- uGGCggCGuGCGCGGGCGUGAGAGGGu -3'
miRNA:   3'- -CUGgaGUcCGCGUUCGCGUUCUCCUc -5'
10511 3' -56.8 NC_002687.1 + 278941 0.68 0.901847
Target:  5'- cACCUUuaucgguGGUGgcAGCGCAGGGGGGGg -3'
miRNA:   3'- cUGGAGu------CCGCguUCGCGUUCUCCUC- -5'
10511 3' -56.8 NC_002687.1 + 18662 0.69 0.875894
Target:  5'- aGCaggggCAGGaGCAGGgGCAGGAGGGGc -3'
miRNA:   3'- cUGga---GUCCgCGUUCgCGUUCUCCUC- -5'
10511 3' -56.8 NC_002687.1 + 17994 0.69 0.861704
Target:  5'- cGGCCgguaaacgCAaGCGCGuAGCGCGcGAGGAGg -3'
miRNA:   3'- -CUGGa-------GUcCGCGU-UCGCGUuCUCCUC- -5'
10511 3' -56.8 NC_002687.1 + 224579 0.7 0.846756
Target:  5'- -uCCUCGa--GCAGGCGCAGGcAGGAGa -3'
miRNA:   3'- cuGGAGUccgCGUUCGCGUUC-UCCUC- -5'
10511 3' -56.8 NC_002687.1 + 195173 0.7 0.846756
Target:  5'- aGACuUUCAGGCGCAAGgGCcAGccguauGGAGu -3'
miRNA:   3'- -CUG-GAGUCCGCGUUCgCGuUCu-----CCUC- -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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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.