miRNA display CGI


Results 1 - 20 of 30 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
28062 5' -58.7 NC_005887.1 + 8399 0.66 0.472874
Target:  5'- gCCgcaCGCGA-CGuGCUCGCCGagcgccgucGGCAGGu -3'
miRNA:   3'- aGGa--GCGCUaGU-CGAGCGGC---------CCGUUC- -5'
28062 5' -58.7 NC_005887.1 + 33654 0.66 0.472874
Target:  5'- aCCgcCGCGG-CGGaUCGCCGGGCc-- -3'
miRNA:   3'- aGGa-GCGCUaGUCgAGCGGCCCGuuc -5'
28062 5' -58.7 NC_005887.1 + 8098 0.66 0.462853
Target:  5'- ---gCGCGcgCAGCUCGCCGcGCu-- -3'
miRNA:   3'- aggaGCGCuaGUCGAGCGGCcCGuuc -5'
28062 5' -58.7 NC_005887.1 + 7015 0.66 0.462853
Target:  5'- -gCUCGUGGcCGGC-CGCCGcGGCGc- -3'
miRNA:   3'- agGAGCGCUaGUCGaGCGGC-CCGUuc -5'
28062 5' -58.7 NC_005887.1 + 38707 0.66 0.452944
Target:  5'- gCCUCGCGAUCAccaggcuacgguGCUgCGCCucGCGAu -3'
miRNA:   3'- aGGAGCGCUAGU------------CGA-GCGGccCGUUc -5'
28062 5' -58.7 NC_005887.1 + 29404 0.66 0.433481
Target:  5'- gCUguaGCGucgCGGCUUGCUGcGGCAGGg -3'
miRNA:   3'- aGGag-CGCua-GUCGAGCGGC-CCGUUC- -5'
28062 5' -58.7 NC_005887.1 + 32227 0.66 0.43252
Target:  5'- uUCUUCGUcguacgugcagccGAUCAGCUggcCGUCGGcGCGGGc -3'
miRNA:   3'- -AGGAGCG-------------CUAGUCGA---GCGGCC-CGUUC- -5'
28062 5' -58.7 NC_005887.1 + 12198 0.66 0.423933
Target:  5'- ---cCGCGAaggaCAGCgccgCGCCGGGCGc- -3'
miRNA:   3'- aggaGCGCUa---GUCGa---GCGGCCCGUuc -5'
28062 5' -58.7 NC_005887.1 + 6971 0.66 0.423933
Target:  5'- aCCUgCGUGAaaAGCUCGCCucGGCAu- -3'
miRNA:   3'- aGGA-GCGCUagUCGAGCGGc-CCGUuc -5'
28062 5' -58.7 NC_005887.1 + 5916 0.66 0.423933
Target:  5'- gCCagGCGAugcgcaaguUCGGUgUGUCGGGCGAGg -3'
miRNA:   3'- aGGagCGCU---------AGUCGaGCGGCCCGUUC- -5'
28062 5' -58.7 NC_005887.1 + 18566 0.66 0.423933
Target:  5'- gCUUCGCGGgcgaCAuGCUCGUCGcGGCGu- -3'
miRNA:   3'- aGGAGCGCUa---GU-CGAGCGGC-CCGUuc -5'
28062 5' -58.7 NC_005887.1 + 17243 0.66 0.420149
Target:  5'- --aUCGCGuacggCGGCgucaauaagaucgUGCCGGGCGAGa -3'
miRNA:   3'- aggAGCGCua---GUCGa------------GCGGCCCGUUC- -5'
28062 5' -58.7 NC_005887.1 + 26690 0.67 0.4043
Target:  5'- uUCCaugUCGCGAUaCAGCcgUCGCgcggccgCGGGCAGc -3'
miRNA:   3'- -AGG---AGCGCUA-GUCG--AGCG-------GCCCGUUc -5'
28062 5' -58.7 NC_005887.1 + 29407 0.67 0.387039
Target:  5'- --gUCGCGAUCaggcucgacAGCUCGUCGGcCGAGu -3'
miRNA:   3'- aggAGCGCUAG---------UCGAGCGGCCcGUUC- -5'
28062 5' -58.7 NC_005887.1 + 5358 0.67 0.387039
Target:  5'- gCCUgCGCGu---GCUCGCC-GGCGAGc -3'
miRNA:   3'- aGGA-GCGCuaguCGAGCGGcCCGUUC- -5'
28062 5' -58.7 NC_005887.1 + 24964 0.67 0.378151
Target:  5'- gCCUUGCGcgCGGC-CGCgaGGGaCAGGu -3'
miRNA:   3'- aGGAGCGCuaGUCGaGCGg-CCC-GUUC- -5'
28062 5' -58.7 NC_005887.1 + 26194 0.67 0.369402
Target:  5'- aUCgCUCGCGcacUCGGCgCGCCGGugguugGCGGGg -3'
miRNA:   3'- -AG-GAGCGCu--AGUCGaGCGGCC------CGUUC- -5'
28062 5' -58.7 NC_005887.1 + 14351 0.68 0.343996
Target:  5'- --aUCGUGAagCAGCgUGCCGGGCAc- -3'
miRNA:   3'- aggAGCGCUa-GUCGaGCGGCCCGUuc -5'
28062 5' -58.7 NC_005887.1 + 41283 0.68 0.319872
Target:  5'- aCCUgcgcacgggCGCGcugCuGC-CGCCGGGCAAGg -3'
miRNA:   3'- aGGA---------GCGCua-GuCGaGCGGCCCGUUC- -5'
28062 5' -58.7 NC_005887.1 + 14699 0.68 0.319872
Target:  5'- cUCgUCGCGGcgGGCggGCCGGGCGc- -3'
miRNA:   3'- -AGgAGCGCUagUCGagCGGCCCGUuc -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.