miRNA display CGI


Results 1 - 19 of 19 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
27927 3' -51 NC_005886.2 + 46638 0.66 0.885833
Target:  5'- -aGCGUGucGAUUCGG-GUucgaguugaaaACCAUCGCGc -3'
miRNA:   3'- uaUGUAC--UUAAGCCgCG-----------UGGUAGCGC- -5'
27927 3' -51 NC_005886.2 + 24529 0.66 0.885833
Target:  5'- -gACAUGGugcgCGGCGUcacugGCCggCGCGc -3'
miRNA:   3'- uaUGUACUuaa-GCCGCG-----UGGuaGCGC- -5'
27927 3' -51 NC_005886.2 + 21128 0.66 0.877903
Target:  5'- --uCAUGAAUcaguaucagUUGGUcuGCGCUAUCGCGc -3'
miRNA:   3'- uauGUACUUA---------AGCCG--CGUGGUAGCGC- -5'
27927 3' -51 NC_005886.2 + 7965 0.66 0.873011
Target:  5'- cAUugGUGuAUUCGggggacaucacggauGCGCaACCGUCGCa -3'
miRNA:   3'- -UAugUACuUAAGC---------------CGCG-UGGUAGCGc -5'
27927 3' -51 NC_005886.2 + 44000 0.66 0.869694
Target:  5'- -gACGUGAAgccCGGUGCGCCcaUGCc -3'
miRNA:   3'- uaUGUACUUaa-GCCGCGUGGuaGCGc -5'
27927 3' -51 NC_005886.2 + 1232 0.67 0.824739
Target:  5'- -gGCggGGGcUUCGGCccuCACUAUCGCGa -3'
miRNA:   3'- uaUGuaCUU-AAGCCGc--GUGGUAGCGC- -5'
27927 3' -51 NC_005886.2 + 32381 0.67 0.824739
Target:  5'- aAUGCAcUGAAUUCGGCa-ACgUAUCGCGc -3'
miRNA:   3'- -UAUGU-ACUUAAGCCGcgUG-GUAGCGC- -5'
27927 3' -51 NC_005886.2 + 43564 0.68 0.774221
Target:  5'- uUGCAUu-GUUCGGCuuGCCAUcCGCGu -3'
miRNA:   3'- uAUGUAcuUAAGCCGcgUGGUA-GCGC- -5'
27927 3' -51 NC_005886.2 + 41544 0.68 0.76358
Target:  5'- ---gGUGcGUUCGGCGUcagacCCAUCGCa -3'
miRNA:   3'- uaugUACuUAAGCCGCGu----GGUAGCGc -5'
27927 3' -51 NC_005886.2 + 40925 0.68 0.76358
Target:  5'- gGUGCAagggGAAggcgUCgcgauGGCGCAUCGUCGUGa -3'
miRNA:   3'- -UAUGUa---CUUa---AG-----CCGCGUGGUAGCGC- -5'
27927 3' -51 NC_005886.2 + 8762 0.69 0.708407
Target:  5'- -aACGUGucggcGUUCGuGCGCACCGUCa-- -3'
miRNA:   3'- uaUGUACu----UAAGC-CGCGUGGUAGcgc -5'
27927 3' -51 NC_005886.2 + 42977 0.7 0.662702
Target:  5'- -cGCAUGAAcauUUCGGCucGCGCCAUgagUGCa -3'
miRNA:   3'- uaUGUACUU---AAGCCG--CGUGGUA---GCGc -5'
27927 3' -51 NC_005886.2 + 38187 0.7 0.662702
Target:  5'- gAUugAUGAAcgUCaGuUGCGCCGUCGCGu -3'
miRNA:   3'- -UAugUACUUa-AGcC-GCGUGGUAGCGC- -5'
27927 3' -51 NC_005886.2 + 35810 0.71 0.604943
Target:  5'- --uCAUGAAUUCGGCacgguGCAaacuCCGUUGCGa -3'
miRNA:   3'- uauGUACUUAAGCCG-----CGU----GGUAGCGC- -5'
27927 3' -51 NC_005886.2 + 11599 0.71 0.581942
Target:  5'- uUGCGUGAugacUUCGcGUGCaACCGUCGCc -3'
miRNA:   3'- uAUGUACUu---AAGC-CGCG-UGGUAGCGc -5'
27927 3' -51 NC_005886.2 + 31985 0.71 0.570506
Target:  5'- gAUGCA---GUUCGGCGCACCGauguaGCGa -3'
miRNA:   3'- -UAUGUacuUAAGCCGCGUGGUag---CGC- -5'
27927 3' -51 NC_005886.2 + 23183 0.73 0.503355
Target:  5'- -cACGUGAA--CGGCuCGCCGUCGUGg -3'
miRNA:   3'- uaUGUACUUaaGCCGcGUGGUAGCGC- -5'
27927 3' -51 NC_005886.2 + 46818 0.75 0.371932
Target:  5'- -cGCAUGcuugcCGGCGCACuCGUCGCGc -3'
miRNA:   3'- uaUGUACuuaa-GCCGCGUG-GUAGCGC- -5'
27927 3' -51 NC_005886.2 + 15148 1.07 0.002945
Target:  5'- gAUACAUGAAUUCGGCGCACCAUCGCGc -3'
miRNA:   3'- -UAUGUACUUAAGCCGCGUGGUAGCGC- -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.