miRNA display CGI


Results 1 - 20 of 40 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
26419 3' -65 NC_005345.2 + 28167 0.66 0.283076
Target:  5'- uCGGcGuUCCUCGCCgCgGCCaaggggcGGCUCGACa -3'
miRNA:   3'- -GCC-CuAGGGGCGG-G-CGG-------CCGAGCUGa -5'
26419 3' -65 NC_005345.2 + 25475 0.66 0.277095
Target:  5'- uCGG----CCCGCCCGaCCGGCcgCGACc -3'
miRNA:   3'- -GCCcuagGGGCGGGC-GGCCGa-GCUGa -5'
26419 3' -65 NC_005345.2 + 12809 0.66 0.270569
Target:  5'- --cGAgccgCUCgGCCCGCCGGUUCGcCUg -3'
miRNA:   3'- gccCUa---GGGgCGGGCGGCCGAGCuGA- -5'
26419 3' -65 NC_005345.2 + 15155 0.66 0.270569
Target:  5'- aGGGugucgaugaaAUCgCCGCCCuuGUCGGCgccCGACUg -3'
miRNA:   3'- gCCC----------UAGgGGCGGG--CGGCCGa--GCUGA- -5'
26419 3' -65 NC_005345.2 + 12115 0.66 0.269279
Target:  5'- -cGGAUCCCgGCUCGCCcGGUgccgcugaaaggCGGCa -3'
miRNA:   3'- gcCCUAGGGgCGGGCGG-CCGa-----------GCUGa -5'
26419 3' -65 NC_005345.2 + 25354 0.66 0.266713
Target:  5'- ---uGUCgCCGCCguccuggcguggcagUGCCGGCUCGACg -3'
miRNA:   3'- gcccUAGgGGCGG---------------GCGGCCGAGCUGa -5'
26419 3' -65 NC_005345.2 + 48375 0.66 0.257889
Target:  5'- uCGGcAUCCCC-CgCCGCCGGCcggGGCUa -3'
miRNA:   3'- -GCCcUAGGGGcG-GGCGGCCGag-CUGA- -5'
26419 3' -65 NC_005345.2 + 42107 0.66 0.251733
Target:  5'- cCGGGccgCCUCGaUCGCCGGCcggUCGACc -3'
miRNA:   3'- -GCCCua-GGGGCgGGCGGCCG---AGCUGa -5'
26419 3' -65 NC_005345.2 + 42032 0.66 0.251124
Target:  5'- gGGGAUacgucCCCCGCaCCGgcagcccgaguuaCCGGCugcUCGGCg -3'
miRNA:   3'- gCCCUA-----GGGGCG-GGC-------------GGCCG---AGCUGa -5'
26419 3' -65 NC_005345.2 + 31849 0.66 0.245699
Target:  5'- aCGGGu---UCGCCCGuCCGGC-CGACa -3'
miRNA:   3'- -GCCCuaggGGCGGGC-GGCCGaGCUGa -5'
26419 3' -65 NC_005345.2 + 42491 0.66 0.245699
Target:  5'- aGGaGAUCgCCacguuCGCCCGUgcccucuccgcgCGGCUCGGCa -3'
miRNA:   3'- gCC-CUAG-GG-----GCGGGCG------------GCCGAGCUGa -5'
26419 3' -65 NC_005345.2 + 16640 0.67 0.239785
Target:  5'- uCGGG----CCGCCCGCCGGCagagggaCGGCa -3'
miRNA:   3'- -GCCCuaggGGCGGGCGGCCGa------GCUGa -5'
26419 3' -65 NC_005345.2 + 2713 0.67 0.239785
Target:  5'- gCGGcGccgauGUCuCCCGCCCGCCcGGCgauGACa -3'
miRNA:   3'- -GCC-C-----UAG-GGGCGGGCGG-CCGag-CUGa -5'
26419 3' -65 NC_005345.2 + 11621 0.67 0.239785
Target:  5'- gGGGAUCacaGCCCGCCGaGCa-GGCa -3'
miRNA:   3'- gCCCUAGgggCGGGCGGC-CGagCUGa -5'
26419 3' -65 NC_005345.2 + 765 0.67 0.233991
Target:  5'- uGGGAUagCCCCGgCCGgCGGCgggggaugcCGACc -3'
miRNA:   3'- gCCCUA--GGGGCgGGCgGCCGa--------GCUGa -5'
26419 3' -65 NC_005345.2 + 22139 0.67 0.222755
Target:  5'- uCGaGGAacucgaccgcgUCCgCGuCCCGCaGGCUCGACa -3'
miRNA:   3'- -GC-CCU-----------AGGgGC-GGGCGgCCGAGCUGa -5'
26419 3' -65 NC_005345.2 + 37480 0.67 0.222205
Target:  5'- gCGGGcgagcgguacgacGUUCCCGCCgggCGCgGGCUgCGGCg -3'
miRNA:   3'- -GCCC-------------UAGGGGCGG---GCGgCCGA-GCUGa -5'
26419 3' -65 NC_005345.2 + 5273 0.67 0.217311
Target:  5'- gCGGGAcgcgCUCCGCCgCGgagucCCGGC-CGACg -3'
miRNA:   3'- -GCCCUa---GGGGCGG-GC-----GGCCGaGCUGa -5'
26419 3' -65 NC_005345.2 + 13394 0.67 0.211981
Target:  5'- -----gCCCCGcCCCGCCGGUUCGucCUg -3'
miRNA:   3'- gcccuaGGGGC-GGGCGGCCGAGCu-GA- -5'
26419 3' -65 NC_005345.2 + 8543 0.67 0.211981
Target:  5'- gCGGaGAgguacaCCCCguGCUCGCCGGCUgCGAUc -3'
miRNA:   3'- -GCC-CUa-----GGGG--CGGGCGGCCGA-GCUGa -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.