miRNA display CGI


Results 1 - 20 of 42 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
25131 5' -53.4 NC_005336.1 + 35841 0.66 0.974163
Target:  5'- uGUCCgCGAucUUGGAgGUCUCCAGCg -3'
miRNA:   3'- gCAGGaGCUccAGCUUaUAGGGGUCG- -5'
25131 5' -53.4 NC_005336.1 + 117771 0.66 0.974163
Target:  5'- --cCCUUGGGuGcUCGAcgAcCCCCAGCc -3'
miRNA:   3'- gcaGGAGCUC-C-AGCUuaUaGGGGUCG- -5'
25131 5' -53.4 NC_005336.1 + 18186 0.66 0.971406
Target:  5'- uCGUCUUgGAGGUUGggU-UUgCUGGCg -3'
miRNA:   3'- -GCAGGAgCUCCAGCuuAuAGgGGUCG- -5'
25131 5' -53.4 NC_005336.1 + 84287 0.66 0.968445
Target:  5'- gCGUUCUgCGAGuUCGcg-AUCCCgGGCg -3'
miRNA:   3'- -GCAGGA-GCUCcAGCuuaUAGGGgUCG- -5'
25131 5' -53.4 NC_005336.1 + 35084 0.66 0.96188
Target:  5'- uCGaaCUCGGGGUCG----UCCgCAGCa -3'
miRNA:   3'- -GCagGAGCUCCAGCuuauAGGgGUCG- -5'
25131 5' -53.4 NC_005336.1 + 9293 0.66 0.960819
Target:  5'- uCGUCCgCGGGGUCGAAgagcacggggaucuUGaCCUCcGCg -3'
miRNA:   3'- -GCAGGaGCUCCAGCUU--------------AUaGGGGuCG- -5'
25131 5' -53.4 NC_005336.1 + 56544 0.67 0.950348
Target:  5'- -aUCCUCGAGGagguccaggucuUCGucu-UCCuCCAGCc -3'
miRNA:   3'- gcAGGAGCUCC------------AGCuuauAGG-GGUCG- -5'
25131 5' -53.4 NC_005336.1 + 100899 0.67 0.941486
Target:  5'- uCGUCCUCGAGcGUgGcc-GUCauaagcaCCAGCg -3'
miRNA:   3'- -GCAGGAGCUC-CAgCuuaUAGg------GGUCG- -5'
25131 5' -53.4 NC_005336.1 + 65005 0.67 0.941486
Target:  5'- gCGUCCUCGGGG-CGcAGgaacaCCAGCc -3'
miRNA:   3'- -GCAGGAGCUCCaGC-UUauaggGGUCG- -5'
25131 5' -53.4 NC_005336.1 + 35271 0.67 0.941486
Target:  5'- gCGUCUUCcgcgagaagaugGAGGUCGAGUugaugAUCacguCCGGCg -3'
miRNA:   3'- -GCAGGAG------------CUCCAGCUUA-----UAGg---GGUCG- -5'
25131 5' -53.4 NC_005336.1 + 14573 0.67 0.936695
Target:  5'- uGUCCUCGuugauGUCGG---UgCCCAGCa -3'
miRNA:   3'- gCAGGAGCuc---CAGCUuauAgGGGUCG- -5'
25131 5' -53.4 NC_005336.1 + 82482 0.67 0.936695
Target:  5'- cCGUCC-CGAGGgcCGggUcucgAUCUCgGGCa -3'
miRNA:   3'- -GCAGGaGCUCCa-GCuuA----UAGGGgUCG- -5'
25131 5' -53.4 NC_005336.1 + 24085 0.67 0.936695
Target:  5'- aCGgCCUCGuacggcGGGUCGA---UCgCCAGCg -3'
miRNA:   3'- -GCaGGAGC------UCCAGCUuauAGgGGUCG- -5'
25131 5' -53.4 NC_005336.1 + 83548 0.68 0.93166
Target:  5'- uGUUaUCGGGGUCGcg---CUCCAGCg -3'
miRNA:   3'- gCAGgAGCUCCAGCuuauaGGGGUCG- -5'
25131 5' -53.4 NC_005336.1 + 25775 0.68 0.926382
Target:  5'- uGgCCUCGcGGUCGAAgauggccaCCUCGGCg -3'
miRNA:   3'- gCaGGAGCuCCAGCUUaua-----GGGGUCG- -5'
25131 5' -53.4 NC_005336.1 + 109167 0.68 0.915092
Target:  5'- uCGUCgUUGGGGUCGAAcacgCgCCGGUc -3'
miRNA:   3'- -GCAGgAGCUCCAGCUUaua-GgGGUCG- -5'
25131 5' -53.4 NC_005336.1 + 113948 0.68 0.909083
Target:  5'- aCGUCC----GG-CGGAUGUUCCCGGCg -3'
miRNA:   3'- -GCAGGagcuCCaGCUUAUAGGGGUCG- -5'
25131 5' -53.4 NC_005336.1 + 121962 0.68 0.909083
Target:  5'- --cCCUggcCGAGGcCGAcggcAUCCCCAGCc -3'
miRNA:   3'- gcaGGA---GCUCCaGCUua--UAGGGGUCG- -5'
25131 5' -53.4 NC_005336.1 + 31546 0.69 0.88962
Target:  5'- aGUCCgCGGGGUUGGAgcUCgCgGGCa -3'
miRNA:   3'- gCAGGaGCUCCAGCUUauAGgGgUCG- -5'
25131 5' -53.4 NC_005336.1 + 85621 0.69 0.88962
Target:  5'- uGUCCgucaucagCGAGuuGUCGAAUAccgCCaCCAGCu -3'
miRNA:   3'- gCAGGa-------GCUC--CAGCUUAUa--GG-GGUCG- -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.