miRNA display CGI


Results 1 - 20 of 29 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
12452 5' -50.7 NC_003324.1 + 603 0.67 0.91278
Target:  5'- uGGAccGAGGCGGACaucaa-GGcCUGGCa -3'
miRNA:   3'- cCCU--UUCUGUCUGguauugCC-GACCG- -5'
12452 5' -50.7 NC_003324.1 + 4683 0.72 0.6643
Target:  5'- aGGAAcauGACcugcgcaacaacGACCAgGGCGGCUGGCu -3'
miRNA:   3'- cCCUUu--CUGu-----------CUGGUaUUGCCGACCG- -5'
12452 5' -50.7 NC_003324.1 + 6275 0.7 0.764882
Target:  5'- aGGcGAGcgAGAUCAU-GCGGCUGGCc -3'
miRNA:   3'- cCCuUUCugUCUGGUAuUGCCGACCG- -5'
12452 5' -50.7 NC_003324.1 + 7647 0.67 0.91278
Target:  5'- cGGAGucgcgccGGCAGugC----CGGCUGGCg -3'
miRNA:   3'- cCCUUu------CUGUCugGuauuGCCGACCG- -5'
12452 5' -50.7 NC_003324.1 + 7813 0.73 0.598898
Target:  5'- cGGAcauAGGCAGGCCAUG-CGGCcGuGCu -3'
miRNA:   3'- cCCUu--UCUGUCUGGUAUuGCCGaC-CG- -5'
12452 5' -50.7 NC_003324.1 + 11204 0.68 0.860224
Target:  5'- cGGAccAAGGuCGGGCCAUAGC-GCaGGCc -3'
miRNA:   3'- cCCU--UUCU-GUCUGGUAUUGcCGaCCG- -5'
12452 5' -50.7 NC_003324.1 + 16226 0.67 0.91278
Target:  5'- ---cGGGGCAGGCCGUGccgacGCGGCcagcgcagGGCc -3'
miRNA:   3'- cccuUUCUGUCUGGUAU-----UGCCGa-------CCG- -5'
12452 5' -50.7 NC_003324.1 + 18593 0.67 0.884386
Target:  5'- ----uAGGCGGGCCAUcugGugGGC-GGCg -3'
miRNA:   3'- cccuuUCUGUCUGGUA---UugCCGaCCG- -5'
12452 5' -50.7 NC_003324.1 + 18869 0.66 0.941293
Target:  5'- uGGGAAGucgucccGCAGAUCAcgcACGGCUcGGUc -3'
miRNA:   3'- cCCUUUC-------UGUCUGGUau-UGCCGA-CCG- -5'
12452 5' -50.7 NC_003324.1 + 18994 0.72 0.666548
Target:  5'- cGGGAAAuacGGCGG-CUGcacGCGGCUGGCc -3'
miRNA:   3'- -CCCUUU---CUGUCuGGUau-UGCCGACCG- -5'
12452 5' -50.7 NC_003324.1 + 25010 0.68 0.851659
Target:  5'- -cGAucGAGACAcugcGACCGggcGGCGuGCUGGCg -3'
miRNA:   3'- ccCU--UUCUGU----CUGGUa--UUGC-CGACCG- -5'
12452 5' -50.7 NC_003324.1 + 26783 0.77 0.399433
Target:  5'- cGGGAGcuucggcuuggcAGACGcGGCCGUGcgcuUGGCUGGCu -3'
miRNA:   3'- -CCCUU------------UCUGU-CUGGUAUu---GCCGACCG- -5'
12452 5' -50.7 NC_003324.1 + 28193 0.66 0.931065
Target:  5'- uGGGcucGGGCAGGgCGUuaGACGGCgaagucgcGGCu -3'
miRNA:   3'- -CCCuu-UCUGUCUgGUA--UUGCCGa-------CCG- -5'
12452 5' -50.7 NC_003324.1 + 28197 0.68 0.876595
Target:  5'- cGGGuuGGAUAucucGAUCGaGAaccCGGCUGGCu -3'
miRNA:   3'- -CCCuuUCUGU----CUGGUaUU---GCCGACCG- -5'
12452 5' -50.7 NC_003324.1 + 29941 0.68 0.867719
Target:  5'- cGGuccGGACGGGCgaggggcguccugCGUAGCGGC-GGCa -3'
miRNA:   3'- cCCuu-UCUGUCUG-------------GUAUUGCCGaCCG- -5'
12452 5' -50.7 NC_003324.1 + 30784 0.67 0.891905
Target:  5'- -aGAAuuGGugGGACaccgagAACGGCUGGUu -3'
miRNA:   3'- ccCUU--UCugUCUGgua---UUGCCGACCG- -5'
12452 5' -50.7 NC_003324.1 + 31596 1.16 0.001067
Target:  5'- cGGGAAAGACAGACCAUAACGGCUGGCg -3'
miRNA:   3'- -CCCUUUCUGUCUGGUAUUGCCGACCG- -5'
12452 5' -50.7 NC_003324.1 + 32421 0.67 0.910808
Target:  5'- cGGGcgaugccgcuAGGCAGGCCAUGcaggauccggagauGCGGCgccGCg -3'
miRNA:   3'- -CCCuu--------UCUGUCUGGUAU--------------UGCCGac-CG- -5'
12452 5' -50.7 NC_003324.1 + 33985 0.66 0.92526
Target:  5'- cGGAAAGGCGGAgCCcgAuuCGGUcGGUu -3'
miRNA:   3'- cCCUUUCUGUCU-GGuaUu-GCCGaCCG- -5'
12452 5' -50.7 NC_003324.1 + 35175 0.67 0.899146
Target:  5'- cGGAAAGGCAGAUgAUGccacCGGagauacgGGCg -3'
miRNA:   3'- cCCUUUCUGUCUGgUAUu---GCCga-----CCG- -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.