miRNA display CGI


Results 1 - 20 of 68 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
23560 3' -53.3 NC_005261.1 + 136596 0.67 0.938849
Target:  5'- aCGcCCGGcGCaGCGUgGAGCGGcGCGc -3'
miRNA:   3'- -GCaGGCCuCGaUGUAgCUCGUCuUGC- -5'
23560 3' -53.3 NC_005261.1 + 134930 0.68 0.92323
Target:  5'- gCGggCCGGGGC-ACcgCGGGCGGAccuggaggaggACGg -3'
miRNA:   3'- -GCa-GGCCUCGaUGuaGCUCGUCU-----------UGC- -5'
23560 3' -53.3 NC_005261.1 + 134615 0.7 0.847443
Target:  5'- gGUCUGGuGCgaacgcgGCGUCGgAGgAGAGCGa -3'
miRNA:   3'- gCAGGCCuCGa------UGUAGC-UCgUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 132227 0.67 0.952263
Target:  5'- uCG-CCGGAGCccucGCcgCGGGaGGAGCGg -3'
miRNA:   3'- -GCaGGCCUCGa---UGuaGCUCgUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 131530 1.09 0.004782
Target:  5'- aCGUCCGGAGCUACAUCGAGCAGAACGu -3'
miRNA:   3'- -GCAGGCCUCGAUGUAGCUCGUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 129705 0.68 0.916946
Target:  5'- cCGgggCCGGAggcaggcccgccgGCUGCAgCG-GCAGGGCGg -3'
miRNA:   3'- -GCa--GGCCU-------------CGAUGUaGCuCGUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 128899 0.67 0.952263
Target:  5'- --cCCGGugGGCU-CGUCGgcGGCGGGGCGg -3'
miRNA:   3'- gcaGGCC--UCGAuGUAGC--UCGUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 128499 0.67 0.952263
Target:  5'- -uUCCGGgcgGGCUA-GUCGcGGCGGAGCGc -3'
miRNA:   3'- gcAGGCC---UCGAUgUAGC-UCGUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 127808 0.66 0.968728
Target:  5'- gCGUCCGuGGGC-ACAgcacccguauggcCGAGCAGAAa- -3'
miRNA:   3'- -GCAGGC-CUCGaUGUa------------GCUCGUCUUgc -5'
23560 3' -53.3 NC_005261.1 + 125809 0.74 0.645743
Target:  5'- uGggCCGGGGCcGCcgCGAGCGGGGCc -3'
miRNA:   3'- gCa-GGCCUCGaUGuaGCUCGUCUUGc -5'
23560 3' -53.3 NC_005261.1 + 125404 0.71 0.813434
Target:  5'- aCGuUCCGGAGCgGCG-CGGGCGGcGCu -3'
miRNA:   3'- -GC-AGGCCUCGaUGUaGCUCGUCuUGc -5'
23560 3' -53.3 NC_005261.1 + 125111 0.66 0.969938
Target:  5'- -uUCCGGGGC-GCGcUCGGGUGGuGCGu -3'
miRNA:   3'- gcAGGCCUCGaUGU-AGCUCGUCuUGC- -5'
23560 3' -53.3 NC_005261.1 + 125034 0.66 0.972815
Target:  5'- -cUCCGGuggGGCgcugAC-UCGGGCAGGGCc -3'
miRNA:   3'- gcAGGCC---UCGa---UGuAGCUCGUCUUGc -5'
23560 3' -53.3 NC_005261.1 + 122974 0.68 0.928684
Target:  5'- cCG-CCGGGGCgaucGCGgcccacugCGAGCGGGGCc -3'
miRNA:   3'- -GCaGGCCUCGa---UGUa-------GCUCGUCUUGc -5'
23560 3' -53.3 NC_005261.1 + 116371 0.67 0.952263
Target:  5'- gCGUUCGcGAGCgcgaGCGUCagcuGCGGGGCGa -3'
miRNA:   3'- -GCAGGC-CUCGa---UGUAGcu--CGUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 115625 0.67 0.943563
Target:  5'- aCGUCgCGGcAGCgcaGCGUCGGGgGGAAg- -3'
miRNA:   3'- -GCAG-GCC-UCGa--UGUAGCUCgUCUUgc -5'
23560 3' -53.3 NC_005261.1 + 109675 0.75 0.552635
Target:  5'- gGcCCGGcgGGCcGCGUCGAGCAGGGCc -3'
miRNA:   3'- gCaGGCC--UCGaUGUAGCUCGUCUUGc -5'
23560 3' -53.3 NC_005261.1 + 108174 0.72 0.757499
Target:  5'- gCGUCUGGAGCgcagGCcgCGgccGGCAGGccGCGg -3'
miRNA:   3'- -GCAGGCCUCGa---UGuaGC---UCGUCU--UGC- -5'
23560 3' -53.3 NC_005261.1 + 107554 0.71 0.795374
Target:  5'- aCGUCCGaGAGCacgGCAgcggCGAaGUAGGGCGc -3'
miRNA:   3'- -GCAGGC-CUCGa--UGUa---GCU-CGUCUUGC- -5'
23560 3' -53.3 NC_005261.1 + 104167 0.79 0.395183
Target:  5'- cCGUCCGcGGGCgccgcgcgcggguCGUCGGGCGGGACGg -3'
miRNA:   3'- -GCAGGC-CUCGau-----------GUAGCUCGUCUUGC- -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.