miRNA display CGI


Results 1 - 20 of 48 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
19013 3' -54.7 NC_004684.1 + 22960 1.14 0.000761
Target:  5'- aGCUCCCGAAUGGUCGAGUUCCAGGCCu -3'
miRNA:   3'- -CGAGGGCUUACCAGCUCAAGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 46396 0.8 0.159664
Target:  5'- cGCUggCCgGGAUGGUCGGG-UCCAcGGCCa -3'
miRNA:   3'- -CGA--GGgCUUACCAGCUCaAGGU-CCGG- -5'
19013 3' -54.7 NC_004684.1 + 22009 0.79 0.187354
Target:  5'- uGCUCCCGGcgGUGGUCaccGggCCAGGCUa -3'
miRNA:   3'- -CGAGGGCU--UACCAGcu-CaaGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 59865 0.73 0.402773
Target:  5'- cCUCCUGGccGGUCGAGagCCAGcucGCCg -3'
miRNA:   3'- cGAGGGCUuaCCAGCUCaaGGUC---CGG- -5'
19013 3' -54.7 NC_004684.1 + 19805 0.73 0.430454
Target:  5'- cGCUCaCCGAGUGGcCGucccaGGUcuuggcucggCCAGGCCu -3'
miRNA:   3'- -CGAG-GGCUUACCaGC-----UCAa---------GGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 31863 0.72 0.459221
Target:  5'- uGUUCCCGGucucggGGUCGAuGgcguaCAGGCCg -3'
miRNA:   3'- -CGAGGGCUua----CCAGCU-Caag--GUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 12839 0.72 0.459221
Target:  5'- uGCUgCCGAcGUGGUCGcGgaggCCgAGGCCg -3'
miRNA:   3'- -CGAgGGCU-UACCAGCuCaa--GG-UCCGG- -5'
19013 3' -54.7 NC_004684.1 + 1765 0.72 0.469035
Target:  5'- --gCCCGggUGcGUCG-GUUCCAGGg- -3'
miRNA:   3'- cgaGGGCuuAC-CAGCuCAAGGUCCgg -5'
19013 3' -54.7 NC_004684.1 + 53736 0.72 0.500116
Target:  5'- cGCUUcaCCGAcgGGgugcuccagcgcaugCGGGUgUCCGGGCCg -3'
miRNA:   3'- -CGAG--GGCUuaCCa--------------GCUCA-AGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 64691 0.71 0.519609
Target:  5'- gGUUCagCCGGAaccgcaacUGGUCGAcGUaCCGGGCCg -3'
miRNA:   3'- -CGAG--GGCUU--------ACCAGCU-CAaGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 28101 0.71 0.51961
Target:  5'- cGCa-CCGggUGGUgCG-GUUCgAGGCCu -3'
miRNA:   3'- -CGagGGCuuACCA-GCuCAAGgUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 16866 0.71 0.523752
Target:  5'- cGCg-CCGcaccUGGUccccgcucauccccgCGAGUUCCAGGCCa -3'
miRNA:   3'- -CGagGGCuu--ACCA---------------GCUCAAGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 57901 0.71 0.540443
Target:  5'- ---gCCGGgaccaggccGUGGUCGGGUUCcCAGGUCu -3'
miRNA:   3'- cgagGGCU---------UACCAGCUCAAG-GUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 33850 0.7 0.570059
Target:  5'- -aUCCCGuuguagcugaGGUCGGGggcgUCCuGGCCg -3'
miRNA:   3'- cgAGGGCuua-------CCAGCUCa---AGGuCCGG- -5'
19013 3' -54.7 NC_004684.1 + 55563 0.7 0.582878
Target:  5'- cGCcguggCCCG-GUGGcCGGGggUCCAGGCa -3'
miRNA:   3'- -CGa----GGGCuUACCaGCUCa-AGGUCCGg -5'
19013 3' -54.7 NC_004684.1 + 51161 0.7 0.615142
Target:  5'- aCUCCuCGGuGUGGcCGAuGcgCCGGGCCa -3'
miRNA:   3'- cGAGG-GCU-UACCaGCU-CaaGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 66035 0.69 0.625936
Target:  5'- ---gCCGAGcuggaccaccUGGUCGAGa-CCGGGCCg -3'
miRNA:   3'- cgagGGCUU----------ACCAGCUCaaGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 6297 0.69 0.669074
Target:  5'- aGCUCCUGGuccaGGUCca---CCAGGCCg -3'
miRNA:   3'- -CGAGGGCUua--CCAGcucaaGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 3091 0.69 0.669074
Target:  5'- uGCUCCCGGuuuc-CGAGcugUUCGGGCCc -3'
miRNA:   3'- -CGAGGGCUuaccaGCUCa--AGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 7675 0.68 0.679799
Target:  5'- cGCUCUgGcauUGGgacaacCGGGcaUUCCAGGCCg -3'
miRNA:   3'- -CGAGGgCuu-ACCa-----GCUC--AAGGUCCGG- -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.