miRNA display CGI


Results 1 - 20 of 28 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
18523 3' -53.7 NC_004681.1 + 67457 1.13 0.001173
Target:  5'- cCAUCGAACAAGCCAUCAGGGGAGCGCg -3'
miRNA:   3'- -GUAGCUUGUUCGGUAGUCCCCUCGCG- -5'
18523 3' -53.7 NC_004681.1 + 64120 0.79 0.223598
Target:  5'- ---gGGACugAGGCUGUCAGGGGAGCGUc -3'
miRNA:   3'- guagCUUG--UUCGGUAGUCCCCUCGCG- -5'
18523 3' -53.7 NC_004681.1 + 56775 0.78 0.247983
Target:  5'- --aCGAugAAGCCuUCGGGGauGAGCGCa -3'
miRNA:   3'- guaGCUugUUCGGuAGUCCC--CUCGCG- -5'
18523 3' -53.7 NC_004681.1 + 32216 0.74 0.412341
Target:  5'- gGUgGAGCAGGCCAUCgcAGcGGcAGCGCg -3'
miRNA:   3'- gUAgCUUGUUCGGUAG--UC-CCcUCGCG- -5'
18523 3' -53.7 NC_004681.1 + 28993 0.73 0.459277
Target:  5'- cCGUCGAacggcguugccuuGCAGGUgGUUucaucagguaGGGGGAGCGCc -3'
miRNA:   3'- -GUAGCU-------------UGUUCGgUAG----------UCCCCUCGCG- -5'
18523 3' -53.7 NC_004681.1 + 18592 0.72 0.510983
Target:  5'- gUAUCGGcaacauCAAGCCcgCGGGGGAGaacacCGCu -3'
miRNA:   3'- -GUAGCUu-----GUUCGGuaGUCCCCUC-----GCG- -5'
18523 3' -53.7 NC_004681.1 + 12316 0.72 0.542506
Target:  5'- ---aGAACGGGCCAcCGGGGaugcGGCGCg -3'
miRNA:   3'- guagCUUGUUCGGUaGUCCCc---UCGCG- -5'
18523 3' -53.7 NC_004681.1 + 29718 0.7 0.672626
Target:  5'- gGUCGAcguCGAGCCAUCAGaGuucagcaGAGCGUa -3'
miRNA:   3'- gUAGCUu--GUUCGGUAGUC-Cc------CUCGCG- -5'
18523 3' -53.7 NC_004681.1 + 3353 0.69 0.694242
Target:  5'- cCAUcCGAGCGAGCgAgcCAGGaaGAGCGCa -3'
miRNA:   3'- -GUA-GCUUGUUCGgUa-GUCCc-CUCGCG- -5'
18523 3' -53.7 NC_004681.1 + 74158 0.69 0.694242
Target:  5'- -cUCGAAgaguCGGGCCAaCAGGuGGccAGCGCa -3'
miRNA:   3'- guAGCUU----GUUCGGUaGUCC-CC--UCGCG- -5'
18523 3' -53.7 NC_004681.1 + 16335 0.69 0.709238
Target:  5'- --cCGAGCAGGCCAUCuccgcugcggcgguGGGuggcgacgaGGGCGCc -3'
miRNA:   3'- guaGCUUGUUCGGUAGu-------------CCC---------CUCGCG- -5'
18523 3' -53.7 NC_004681.1 + 43922 0.69 0.715621
Target:  5'- --gCGGACGcugguGCCGUagCGGGGGugGGCGCg -3'
miRNA:   3'- guaGCUUGUu----CGGUA--GUCCCC--UCGCG- -5'
18523 3' -53.7 NC_004681.1 + 6470 0.68 0.747054
Target:  5'- -cUCG-ACAGcGCCAUCGGGcGuGGCGCc -3'
miRNA:   3'- guAGCuUGUU-CGGUAGUCC-CcUCGCG- -5'
18523 3' -53.7 NC_004681.1 + 13897 0.68 0.767453
Target:  5'- uGUUGAGCAAgcGCCGggacgaCAGcuuGGGGGCGCc -3'
miRNA:   3'- gUAGCUUGUU--CGGUa-----GUC---CCCUCGCG- -5'
18523 3' -53.7 NC_004681.1 + 49653 0.68 0.777453
Target:  5'- -cUCGGGCcuGCCcgCGGGGGAaggccaGgGCg -3'
miRNA:   3'- guAGCUUGuuCGGuaGUCCCCU------CgCG- -5'
18523 3' -53.7 NC_004681.1 + 30286 0.67 0.787305
Target:  5'- uGUCGGu---GCCGUCAGGGuucuuGGCGUa -3'
miRNA:   3'- gUAGCUuguuCGGUAGUCCCc----UCGCG- -5'
18523 3' -53.7 NC_004681.1 + 29947 0.67 0.796997
Target:  5'- -cUUGAccGCAuucgcGCCAaCAGGGGcaAGCGCg -3'
miRNA:   3'- guAGCU--UGUu----CGGUaGUCCCC--UCGCG- -5'
18523 3' -53.7 NC_004681.1 + 24753 0.67 0.806521
Target:  5'- -cUCGGGCGGGUUGUC-GGGGucCGCg -3'
miRNA:   3'- guAGCUUGUUCGGUAGuCCCCucGCG- -5'
18523 3' -53.7 NC_004681.1 + 2759 0.67 0.815864
Target:  5'- cCGUC-AACGAccGCCucaAGGGuGAGCGCg -3'
miRNA:   3'- -GUAGcUUGUU--CGGuagUCCC-CUCGCG- -5'
18523 3' -53.7 NC_004681.1 + 59803 0.67 0.815864
Target:  5'- uGUUG-GCAGGCCGcacucccagCAGGGG-GCGUg -3'
miRNA:   3'- gUAGCuUGUUCGGUa--------GUCCCCuCGCG- -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.