miRNA display CGI


Results 1 - 20 of 40 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
11486 3' -54.2 NC_003085.1 + 361 0.73 0.317271
Target:  5'- gGGAUGa---GCGCCGACAacgGGAGGg -3'
miRNA:   3'- -UCUACguagCGCGGCUGUaa-CCUCCg -5'
11486 3' -54.2 NC_003085.1 + 3650 0.71 0.413555
Target:  5'- gGGAcgcUGCAcUgGUGgCGAgGUUGGAGGCa -3'
miRNA:   3'- -UCU---ACGU-AgCGCgGCUgUAACCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 3697 0.68 0.591796
Target:  5'- gGGAUGCGgccaCGCaGCgCGACGUgccacGcGAGGCg -3'
miRNA:   3'- -UCUACGUa---GCG-CG-GCUGUAa----C-CUCCG- -5'
11486 3' -54.2 NC_003085.1 + 5074 0.68 0.61079
Target:  5'- ---gGCAUCGUggucgcgucaagaaGUCGGaGUUGGAGGCg -3'
miRNA:   3'- ucuaCGUAGCG--------------CGGCUgUAACCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 7464 0.75 0.258496
Target:  5'- cGGuggGCGUCGCGCCucACGcUGGAGGUg -3'
miRNA:   3'- -UCua-CGUAGCGCGGc-UGUaACCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 7510 0.67 0.647774
Target:  5'- cAGGUGCGUCucgGUGgCGGCAagUGG-GGCc -3'
miRNA:   3'- -UCUACGUAG---CGCgGCUGUa-ACCuCCG- -5'
11486 3' -54.2 NC_003085.1 + 7728 0.69 0.568478
Target:  5'- cGA-GCAggaaaacUCgGUGCCGAaGUUGGAGGCc -3'
miRNA:   3'- uCUaCGU-------AG-CGCGGCUgUAACCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 9490 0.7 0.483456
Target:  5'- cGGAUaCGUCGCGgUGACGaUGGcGGCg -3'
miRNA:   3'- -UCUAcGUAGCGCgGCUGUaACCuCCG- -5'
11486 3' -54.2 NC_003085.1 + 9900 0.66 0.725181
Target:  5'- cGGAUGCAUCcCGUCGAguacugcugguUGUUGGAGa- -3'
miRNA:   3'- -UCUACGUAGcGCGGCU-----------GUAACCUCcg -5'
11486 3' -54.2 NC_003085.1 + 10604 0.66 0.746611
Target:  5'- uGAUGCugucgccgCGCGCCGucGCAgugGGAcgacgcGGCa -3'
miRNA:   3'- uCUACGua------GCGCGGC--UGUaa-CCU------CCG- -5'
11486 3' -54.2 NC_003085.1 + 10636 0.67 0.658967
Target:  5'- -uGUGUGggGCGCCGGCA---GAGGCa -3'
miRNA:   3'- ucUACGUagCGCGGCUGUaacCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 10806 0.67 0.692346
Target:  5'- cGGGUGCga-GUGCC-AC--UGGAGGCg -3'
miRNA:   3'- -UCUACGuagCGCGGcUGuaACCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 11650 0.71 0.413555
Target:  5'- cGGAggGCAUUGCGCCGggugGCcgaGGAGGUg -3'
miRNA:   3'- -UCUa-CGUAGCGCGGC----UGuaaCCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 13567 0.68 0.591796
Target:  5'- cGAgcaagGCG-CGCGUgGACGUgggcaccGGAGGCg -3'
miRNA:   3'- uCUa----CGUaGCGCGgCUGUAa------CCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 14023 1.13 0.000578
Target:  5'- gAGAUGCAUCGCGCCGACAUUGGAGGCg -3'
miRNA:   3'- -UCUACGUAGCGCGGCUGUAACCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 16795 0.66 0.746611
Target:  5'- gAGggGCGUCucuucguaGCGCCcAUAUugcgccuuguccUGGAGGCu -3'
miRNA:   3'- -UCuaCGUAG--------CGCGGcUGUA------------ACCUCCG- -5'
11486 3' -54.2 NC_003085.1 + 18301 0.66 0.703367
Target:  5'- cGGUGCA-CGCcCCGGCGcUGGccguccgaaGGGCa -3'
miRNA:   3'- uCUACGUaGCGcGGCUGUaACC---------UCCG- -5'
11486 3' -54.2 NC_003085.1 + 19001 0.67 0.670134
Target:  5'- cGGUGCAUCGUcggGCC--CGUUGGuagcGGCa -3'
miRNA:   3'- uCUACGUAGCG---CGGcuGUAACCu---CCG- -5'
11486 3' -54.2 NC_003085.1 + 20661 0.66 0.725181
Target:  5'- ---cGCGUCGCGUCGGaGUugcUGGAgcGGCu -3'
miRNA:   3'- ucuaCGUAGCGCGGCUgUA---ACCU--CCG- -5'
11486 3' -54.2 NC_003085.1 + 23002 0.68 0.625354
Target:  5'- gAGGUGCG-CGCGCCG-CAguccuGGCg -3'
miRNA:   3'- -UCUACGUaGCGCGGCuGUaaccuCCG- -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.