miRNA display CGI


Results 1 - 16 of 16 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
17979 3' -52.9 NC_004665.1 + 16944 0.66 0.709942
Target:  5'- uAGUUGCaUUCAcUGGCCAGCuuAAUGa -3'
miRNA:   3'- -UCGACG-GAGUaACUGGUCGcgUUACg -5'
17979 3' -52.9 NC_004665.1 + 18131 0.66 0.709942
Target:  5'- uGCUcGCCaucUCGcUUGGuCCAGCGCAcaGCg -3'
miRNA:   3'- uCGA-CGG---AGU-AACU-GGUCGCGUuaCG- -5'
17979 3' -52.9 NC_004665.1 + 21062 0.66 0.706512
Target:  5'- gGGUUGCCgUUAggcggcuggggugaaGACCAGCGCAccaGCa -3'
miRNA:   3'- -UCGACGG-AGUaa-------------CUGGUCGCGUua-CG- -5'
17979 3' -52.9 NC_004665.1 + 11678 0.66 0.686947
Target:  5'- gAGCgGCCUCAcgGGCCAccagcuucucGUgacgacgcuugGCGAUGCg -3'
miRNA:   3'- -UCGaCGGAGUaaCUGGU----------CG-----------CGUUACG- -5'
17979 3' -52.9 NC_004665.1 + 826 0.66 0.684632
Target:  5'- uGGUUGCC-CugagaggcgaGACCGGCuCAGUGCg -3'
miRNA:   3'- -UCGACGGaGuaa-------CUGGUCGcGUUACG- -5'
17979 3' -52.9 NC_004665.1 + 7762 0.67 0.65204
Target:  5'- cGgUGCCgUUGUUGguGCCAGCGUGAaacUGCa -3'
miRNA:   3'- uCgACGG-AGUAAC--UGGUCGCGUU---ACG- -5'
17979 3' -52.9 NC_004665.1 + 4375 0.67 0.648534
Target:  5'- cGCUgGUCUCGgucauacgcucagcgGACUGGCGCAggGCu -3'
miRNA:   3'- uCGA-CGGAGUaa-------------CUGGUCGCGUuaCG- -5'
17979 3' -52.9 NC_004665.1 + 13802 0.67 0.628645
Target:  5'- aGGCUGCUggcaUCAUcaaguucGACgAGCGCGAUaaGCa -3'
miRNA:   3'- -UCGACGG----AGUAa------CUGgUCGCGUUA--CG- -5'
17979 3' -52.9 NC_004665.1 + 10512 0.67 0.628645
Target:  5'- aGGCUGCCc----GACCAGCGuCAuccAUGUc -3'
miRNA:   3'- -UCGACGGaguaaCUGGUCGC-GU---UACG- -5'
17979 3' -52.9 NC_004665.1 + 13016 0.68 0.558893
Target:  5'- cGUUGCgCUCcaucugGGCCAGCGUccAUGCa -3'
miRNA:   3'- uCGACG-GAGuaa---CUGGUCGCGu-UACG- -5'
17979 3' -52.9 NC_004665.1 + 12476 0.68 0.547443
Target:  5'- aGGUgGCCUCAUUGA--AGCGC-GUGUa -3'
miRNA:   3'- -UCGaCGGAGUAACUggUCGCGuUACG- -5'
17979 3' -52.9 NC_004665.1 + 2476 0.69 0.502475
Target:  5'- aGGUUGaCUUCA---GCCAGCGCAA-GCa -3'
miRNA:   3'- -UCGAC-GGAGUaacUGGUCGCGUUaCG- -5'
17979 3' -52.9 NC_004665.1 + 12588 0.69 0.502475
Target:  5'- uGGC-GCUUCAguUUGuCCAGCGCAgggAUGUc -3'
miRNA:   3'- -UCGaCGGAGU--AACuGGUCGCGU---UACG- -5'
17979 3' -52.9 NC_004665.1 + 28710 0.72 0.351569
Target:  5'- gAGCUGCCUgaaggCAUggcaccUGuCCAGCGCAA-GCc -3'
miRNA:   3'- -UCGACGGA-----GUA------ACuGGUCGCGUUaCG- -5'
17979 3' -52.9 NC_004665.1 + 16865 0.73 0.300875
Target:  5'- aAGCUccaacgugGCCUCAUuaagcUGGCCAGUG-AAUGCa -3'
miRNA:   3'- -UCGA--------CGGAGUA-----ACUGGUCGCgUUACG- -5'
17979 3' -52.9 NC_004665.1 + 14978 1.13 0.000435
Target:  5'- aAGCUGCCUCAUUGACCAGCGCAAUGCg -3'
miRNA:   3'- -UCGACGGAGUAACUGGUCGCGUUACG- -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.