miRNA display CGI


Results 1 - 20 of 22 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
12362 3' -57.1 NC_003324.1 + 54424 0.66 0.645142
Target:  5'- cGAGAUAgugCCCgGUCaaggcGUCGAGCCa -3'
miRNA:   3'- -CUCUGUa--GGGgUAGgua--CGGCUCGGg -5'
12362 3' -57.1 NC_003324.1 + 45798 0.66 0.645142
Target:  5'- --cACAU-CCgAUCCGUGCCGucGCCUg -3'
miRNA:   3'- cucUGUAgGGgUAGGUACGGCu-CGGG- -5'
12362 3' -57.1 NC_003324.1 + 31073 0.66 0.645142
Target:  5'- -cGACggCCUgauUGUCCGUGCCG-GUCCu -3'
miRNA:   3'- cuCUGuaGGG---GUAGGUACGGCuCGGG- -5'
12362 3' -57.1 NC_003324.1 + 28153 0.66 0.634268
Target:  5'- aAGGCAcgagCCCAUCCGgcaaGCCGuGGUCCg -3'
miRNA:   3'- cUCUGUag--GGGUAGGUa---CGGC-UCGGG- -5'
12362 3' -57.1 NC_003324.1 + 32116 0.66 0.623392
Target:  5'- uGAGGCcgagugccuugGUCUCCG-CCucggGCCGGGCCg -3'
miRNA:   3'- -CUCUG-----------UAGGGGUaGGua--CGGCUCGGg -5'
12362 3' -57.1 NC_003324.1 + 557 0.66 0.623392
Target:  5'- aGGGACGuUUCCCGauUCCAgaaaGCUGGGCgCg -3'
miRNA:   3'- -CUCUGU-AGGGGU--AGGUa---CGGCUCGgG- -5'
12362 3' -57.1 NC_003324.1 + 34083 0.66 0.590845
Target:  5'- -cGGCuccgCCCUGUCCAUGagaCCGAGUCg -3'
miRNA:   3'- cuCUGua--GGGGUAGGUAC---GGCUCGGg -5'
12362 3' -57.1 NC_003324.1 + 37040 0.66 0.590845
Target:  5'- uAGcCGUCuUCCAUCCA-GCCGAcGCCa -3'
miRNA:   3'- cUCuGUAG-GGGUAGGUaCGGCU-CGGg -5'
12362 3' -57.1 NC_003324.1 + 21842 0.67 0.558602
Target:  5'- cGGACgaGUUCCUcgCCcUGCaGAGCCCg -3'
miRNA:   3'- cUCUG--UAGGGGuaGGuACGgCUCGGG- -5'
12362 3' -57.1 NC_003324.1 + 55184 0.68 0.506099
Target:  5'- uGGGCucUCgCCCAcgCCAUGUCGAugguGCCCa -3'
miRNA:   3'- cUCUGu-AG-GGGUa-GGUACGGCU----CGGG- -5'
12362 3' -57.1 NC_003324.1 + 51210 0.68 0.485684
Target:  5'- -cGACAUCCCCAugcuuuacUCCGgcgcgaugGuCCGcGCCCu -3'
miRNA:   3'- cuCUGUAGGGGU--------AGGUa-------C-GGCuCGGG- -5'
12362 3' -57.1 NC_003324.1 + 17598 0.68 0.474623
Target:  5'- cAGAUAgugCCCCGgcgcgCCGUugagcacgaugccGCCGAGCUCg -3'
miRNA:   3'- cUCUGUa--GGGGUa----GGUA-------------CGGCUCGGG- -5'
12362 3' -57.1 NC_003324.1 + 30372 0.69 0.465668
Target:  5'- -uGGCGUCgCCCucggCCAUGCC--GCCCu -3'
miRNA:   3'- cuCUGUAG-GGGua--GGUACGGcuCGGG- -5'
12362 3' -57.1 NC_003324.1 + 52713 0.69 0.464679
Target:  5'- --cGCGUCCaucagcaCUAUCgGUGCCuGAGCCCa -3'
miRNA:   3'- cucUGUAGG-------GGUAGgUACGG-CUCGGG- -5'
12362 3' -57.1 NC_003324.1 + 28282 0.69 0.44609
Target:  5'- -cGACuUCgCCGUCUAacgcccUGcCCGAGCCCa -3'
miRNA:   3'- cuCUGuAGgGGUAGGU------AC-GGCUCGGG- -5'
12362 3' -57.1 NC_003324.1 + 20827 0.69 0.436474
Target:  5'- --cGCAUCgCCGUUCcgGUCGGGUCCa -3'
miRNA:   3'- cucUGUAGgGGUAGGuaCGGCUCGGG- -5'
12362 3' -57.1 NC_003324.1 + 34967 0.69 0.417607
Target:  5'- -cGGCAUCgCCCguGUCUgugGUGuCCGAGCCUg -3'
miRNA:   3'- cuCUGUAG-GGG--UAGG---UAC-GGCUCGGG- -5'
12362 3' -57.1 NC_003324.1 + 56234 0.71 0.355668
Target:  5'- -cGACAUCCugcauCCGUCCGUGCUucGCCa -3'
miRNA:   3'- cuCUGUAGG-----GGUAGGUACGGcuCGGg -5'
12362 3' -57.1 NC_003324.1 + 22689 0.71 0.355668
Target:  5'- -cGACAUagagCgCAUCCAcGCCGAGCUCg -3'
miRNA:   3'- cuCUGUAg---GgGUAGGUaCGGCUCGGG- -5'
12362 3' -57.1 NC_003324.1 + 57302 0.71 0.3392
Target:  5'- --uGCcgCCCUcgCCuccGCCGAGCCCu -3'
miRNA:   3'- cucUGuaGGGGuaGGua-CGGCUCGGG- -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.