miRNA display CGI


Results 1 - 20 of 41 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
28961 3' -54.6 NC_006146.1 + 116891 0.66 0.938957
Target:  5'- aGGCGCCAccuGGugccGGCCCugAGGGAa---- -3'
miRNA:   3'- -UCGCGGU---CU----UCGGGugUCUCUacauu -5'
28961 3' -54.6 NC_006146.1 + 128875 0.66 0.938957
Target:  5'- cGGCGUgAGcccGGGCCCAgAGGGA-GUAGc -3'
miRNA:   3'- -UCGCGgUC---UUCGGGUgUCUCUaCAUU- -5'
28961 3' -54.6 NC_006146.1 + 75256 0.66 0.933959
Target:  5'- cGgGCguGggGUgCACGGGGAUGg-- -3'
miRNA:   3'- uCgCGguCuuCGgGUGUCUCUACauu -5'
28961 3' -54.6 NC_006146.1 + 88144 0.66 0.928711
Target:  5'- gGGCGCaaAGggGCuUCAC-GAGGUGUAGa -3'
miRNA:   3'- -UCGCGg-UCuuCG-GGUGuCUCUACAUU- -5'
28961 3' -54.6 NC_006146.1 + 109402 0.66 0.928711
Target:  5'- gGGCGgCAGggGCCUccuCGGAGcccugGUGAu -3'
miRNA:   3'- -UCGCgGUCuuCGGGu--GUCUCua---CAUU- -5'
28961 3' -54.6 NC_006146.1 + 75459 0.66 0.923211
Target:  5'- uAGCuCCAGAggcaGGCCC-CAGAGAUa--- -3'
miRNA:   3'- -UCGcGGUCU----UCGGGuGUCUCUAcauu -5'
28961 3' -54.6 NC_006146.1 + 74722 0.66 0.923211
Target:  5'- cAGgGCCAGAaaGGCCCugGaGGGAcccaGUGAg -3'
miRNA:   3'- -UCgCGGUCU--UCGGGugU-CUCUa---CAUU- -5'
28961 3' -54.6 NC_006146.1 + 162588 0.66 0.922647
Target:  5'- gAGgGUCGGggGCCCuaacagcACAGAGAg---- -3'
miRNA:   3'- -UCgCGGUCuuCGGG-------UGUCUCUacauu -5'
28961 3' -54.6 NC_006146.1 + 154705 0.66 0.917459
Target:  5'- uGCGcCCAGAugcAGCCCAcCAGGGcgGc-- -3'
miRNA:   3'- uCGC-GGUCU---UCGGGU-GUCUCuaCauu -5'
28961 3' -54.6 NC_006146.1 + 65824 0.67 0.905206
Target:  5'- uGCGCCAGGcgcucgAGCCCuuugaggaccAUGGAcGAUGUGAc -3'
miRNA:   3'- uCGCGGUCU------UCGGG----------UGUCU-CUACAUU- -5'
28961 3' -54.6 NC_006146.1 + 49258 0.67 0.898708
Target:  5'- cAGgGCCGGuAGCCCccugUAGAGGUGg-- -3'
miRNA:   3'- -UCgCGGUCuUCGGGu---GUCUCUACauu -5'
28961 3' -54.6 NC_006146.1 + 54997 0.67 0.877767
Target:  5'- gGGUgGCCGGAAGCCCcccggGCGG-GAUGg-- -3'
miRNA:   3'- -UCG-CGGUCUUCGGG-----UGUCuCUACauu -5'
28961 3' -54.6 NC_006146.1 + 14178 0.67 0.877767
Target:  5'- uGCGCCAGGcuggacccccggAGCCUggACGGGGAggcgGUGg -3'
miRNA:   3'- uCGCGGUCU------------UCGGG--UGUCUCUa---CAUu -5'
28961 3' -54.6 NC_006146.1 + 101925 0.68 0.870319
Target:  5'- uGCGCCGGuGG-CCGCGGGGGcgGUGAc -3'
miRNA:   3'- uCGCGGUCuUCgGGUGUCUCUa-CAUU- -5'
28961 3' -54.6 NC_006146.1 + 127072 0.68 0.868802
Target:  5'- cGGCGCgGGAAGCCgaaagggccaggGCGGAGcgGUGGg -3'
miRNA:   3'- -UCGCGgUCUUCGGg-----------UGUCUCuaCAUU- -5'
28961 3' -54.6 NC_006146.1 + 85646 0.68 0.854755
Target:  5'- aGGgGCUGGuuGGCCCACGGGGAcccugGUGGa -3'
miRNA:   3'- -UCgCGGUCu-UCGGGUGUCUCUa----CAUU- -5'
28961 3' -54.6 NC_006146.1 + 126084 0.68 0.854755
Target:  5'- gGGCGCCGGcccCCUACAGAGGUcccaGUAu -3'
miRNA:   3'- -UCGCGGUCuucGGGUGUCUCUA----CAUu -5'
28961 3' -54.6 NC_006146.1 + 168488 0.69 0.812264
Target:  5'- gAG-GCCacguguGGAGGCCCGCGGAGAggccgUGUGu -3'
miRNA:   3'- -UCgCGG------UCUUCGGGUGUCUCU-----ACAUu -5'
28961 3' -54.6 NC_006146.1 + 170351 0.69 0.812264
Target:  5'- gAG-GCCacguguGGAGGCCCGCGGAGAggccgUGUGu -3'
miRNA:   3'- -UCgCGG------UCUUCGGGUGUCUCU-----ACAUu -5'
28961 3' -54.6 NC_006146.1 + 167556 0.69 0.812264
Target:  5'- gAG-GCCacguguGGAGGCCCGCGGAGAggccgUGUGu -3'
miRNA:   3'- -UCgCGG------UCUUCGGGUGUCUCU-----ACAUu -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.