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 + 25475 0.66 0.277095
Target:  5'- uCGG----CCCGCCCGaCCGGCcgCGACc -3'
miRNA:   3'- -GCCcuagGGGCGGGC-GGCCGa-GCUGa -5'
26419 3' -65 NC_005345.2 + 38284 0.69 0.168481
Target:  5'- aCGGGAcgcgCCgcgugcggcaguCCGCCCaccgcagcucggcGCCGGCUCGugUc -3'
miRNA:   3'- -GCCCUa---GG------------GGCGGG-------------CGGCCGAGCugA- -5'
26419 3' -65 NC_005345.2 + 7678 0.69 0.164221
Target:  5'- gGGGAgCCCCcagcgcaGCCCGCCGGUacCGAa- -3'
miRNA:   3'- gCCCUaGGGG-------CGGGCGGCCGa-GCUga -5'
26419 3' -65 NC_005345.2 + 23000 0.69 0.164221
Target:  5'- uCGGGGUCCUCGCCgagGUCGGgcauccgggcgaaCUCGACc -3'
miRNA:   3'- -GCCCUAGGGGCGGg--CGGCC-------------GAGCUGa -5'
26419 3' -65 NC_005345.2 + 21338 0.71 0.120518
Target:  5'- uCGGG-UCCUCGCCCGUgcgCGGCUUG-Cg -3'
miRNA:   3'- -GCCCuAGGGGCGGGCG---GCCGAGCuGa -5'
26419 3' -65 NC_005345.2 + 34329 0.71 0.110755
Target:  5'- uCGGGcgucgaccacaCCCgCGCCCGCCG-CUCGACg -3'
miRNA:   3'- -GCCCua---------GGG-GCGGGCGGCcGAGCUGa -5'
26419 3' -65 NC_005345.2 + 45054 0.72 0.09242
Target:  5'- gGGGuGUgCCCGUcgugcucgaCCGUCGGCUCGACg -3'
miRNA:   3'- gCCC-UAgGGGCG---------GGCGGCCGAGCUGa -5'
26419 3' -65 NC_005345.2 + 4466 0.73 0.076574
Target:  5'- gCGGGggCCCgGCggCCGuguCCGGCUCGACg -3'
miRNA:   3'- -GCCCuaGGGgCG--GGC---GGCCGAGCUGa -5'
26419 3' -65 NC_005345.2 + 560 0.76 0.050932
Target:  5'- gCGuGGGUCCUCGCCCGCCGcGagcucaUCGGCg -3'
miRNA:   3'- -GC-CCUAGGGGCGGGCGGC-Cg-----AGCUGa -5'
26419 3' -65 NC_005345.2 + 20786 0.69 0.173281
Target:  5'- uGGuAUCCgCCGCCCuGUCGGCgcCGACg -3'
miRNA:   3'- gCCcUAGG-GGCGGG-CGGCCGa-GCUGa -5'
26419 3' -65 NC_005345.2 + 39413 0.68 0.182321
Target:  5'- cCGGGAgcgucggcgcggUCgCgGCCCGCgCGGCgCGGCUc -3'
miRNA:   3'- -GCCCU------------AGgGgCGGGCG-GCCGaGCUGA- -5'
26419 3' -65 NC_005345.2 + 8543 0.67 0.211981
Target:  5'- gCGGaGAgguacaCCCCguGCUCGCCGGCUgCGAUc -3'
miRNA:   3'- -GCC-CUa-----GGGG--CGGGCGGCCGA-GCUGa -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 + 42107 0.66 0.251733
Target:  5'- cCGGGccgCCUCGaUCGCCGGCcggUCGACc -3'
miRNA:   3'- -GCCCua-GGGGCgGGCGGCCG---AGCUGa -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' 
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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.