miRNA display CGI


Results 1 - 20 of 29 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
20405 5' -55.3 NC_004688.1 + 26059 0.66 0.906553
Target:  5'- -cGCCCGcagcaccggGGGcacGGCUCCGGGGagGCCc -3'
miRNA:   3'- gcUGGGUa--------UUC---UCGAGGCCUCagCGG- -5'
20405 5' -55.3 NC_004688.1 + 73653 0.66 0.906553
Target:  5'- aGGCCCucgucgcGGAGCcucuuguacUCCucGAGUCGCCc -3'
miRNA:   3'- gCUGGGuau----UCUCG---------AGGc-CUCAGCGG- -5'
20405 5' -55.3 NC_004688.1 + 385 0.66 0.906553
Target:  5'- -cACCCAUuGGGGCgCUGaaagaAGUCGCCa -3'
miRNA:   3'- gcUGGGUAuUCUCGaGGCc----UCAGCGG- -5'
20405 5' -55.3 NC_004688.1 + 48887 0.66 0.886683
Target:  5'- uGugCCGc-GGGGCUCCGGuGgaGCCc -3'
miRNA:   3'- gCugGGUauUCUCGAGGCCuCagCGG- -5'
20405 5' -55.3 NC_004688.1 + 30426 0.66 0.878868
Target:  5'- uCGACCCAgucgguguAGAGUugaccguUgCGGAuaaugGUCGCCa -3'
miRNA:   3'- -GCUGGGUau------UCUCG-------AgGCCU-----CAGCGG- -5'
20405 5' -55.3 NC_004688.1 + 67177 0.67 0.864725
Target:  5'- uCGACCCAguGGA-CUucgUCGGAGUCaagGCCg -3'
miRNA:   3'- -GCUGGGUauUCUcGA---GGCCUCAG---CGG- -5'
20405 5' -55.3 NC_004688.1 + 91862 0.67 0.864725
Target:  5'- gGACCCAUucGAGGG-UCCGcGA-UUGCCa -3'
miRNA:   3'- gCUGGGUA--UUCUCgAGGC-CUcAGCGG- -5'
20405 5' -55.3 NC_004688.1 + 85676 0.67 0.848996
Target:  5'- gCGACCCAUGu-AGUcaUGGAGuUCGCCc -3'
miRNA:   3'- -GCUGGGUAUucUCGagGCCUC-AGCGG- -5'
20405 5' -55.3 NC_004688.1 + 80082 0.67 0.848996
Target:  5'- uGG-CCAUAGGGGCaUUCGGuG-CGCCg -3'
miRNA:   3'- gCUgGGUAUUCUCG-AGGCCuCaGCGG- -5'
20405 5' -55.3 NC_004688.1 + 11865 0.67 0.840823
Target:  5'- uCGACCCAccccguGGAGUagcgacagaucUUCGGGGgccCGCCa -3'
miRNA:   3'- -GCUGGGUau----UCUCG-----------AGGCCUCa--GCGG- -5'
20405 5' -55.3 NC_004688.1 + 100061 0.67 0.829054
Target:  5'- uGGCCUAcgcgcucgcaacaGAGAGCgUCCGGguGGUUGCCc -3'
miRNA:   3'- gCUGGGUa------------UUCUCG-AGGCC--UCAGCGG- -5'
20405 5' -55.3 NC_004688.1 + 49400 0.67 0.823031
Target:  5'- gCGGCCCAcGAGAauggggcGUUCCau-GUCGCCg -3'
miRNA:   3'- -GCUGGGUaUUCU-------CGAGGccuCAGCGG- -5'
20405 5' -55.3 NC_004688.1 + 84815 0.67 0.823031
Target:  5'- gCGACCCAU-----CUCCGGGGUCcacuucaGCCc -3'
miRNA:   3'- -GCUGGGUAuucucGAGGCCUCAG-------CGG- -5'
20405 5' -55.3 NC_004688.1 + 61809 0.68 0.81516
Target:  5'- gGGCUCGUcGGAGCUgCGG-GUCcagcgGCCg -3'
miRNA:   3'- gCUGGGUAuUCUCGAgGCCuCAG-----CGG- -5'
20405 5' -55.3 NC_004688.1 + 36620 0.68 0.81516
Target:  5'- uGACaCCAguaccGAcGCUCCGGcGGUgGCCg -3'
miRNA:   3'- gCUG-GGUauu--CU-CGAGGCC-UCAgCGG- -5'
20405 5' -55.3 NC_004688.1 + 95516 0.68 0.797179
Target:  5'- gCGGCCa---GGGGCcgCCGGAGUgGCg -3'
miRNA:   3'- -GCUGGguauUCUCGa-GGCCUCAgCGg -5'
20405 5' -55.3 NC_004688.1 + 53643 0.69 0.759443
Target:  5'- -cGCCCA----GGCUCCGGcauugacGUCGCCg -3'
miRNA:   3'- gcUGGGUauucUCGAGGCCu------CAGCGG- -5'
20405 5' -55.3 NC_004688.1 + 72279 0.69 0.759443
Target:  5'- gCGAuCCCGgcuucGGuaUCCGGGGUUGCCu -3'
miRNA:   3'- -GCU-GGGUauu--CUcgAGGCCUCAGCGG- -5'
20405 5' -55.3 NC_004688.1 + 80327 0.69 0.759443
Target:  5'- -aACUCGcUAAGAcGCcCCGGcAGUCGCCg -3'
miRNA:   3'- gcUGGGU-AUUCU-CGaGGCC-UCAGCGG- -5'
20405 5' -55.3 NC_004688.1 + 65717 0.69 0.729886
Target:  5'- gGAacUCCuc-GGGGCaacgCCGGGGUCGCCc -3'
miRNA:   3'- gCU--GGGuauUCUCGa---GGCCUCAGCGG- -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.