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
26811 3' -53.6 NC_005808.1 + 1741 0.76 0.208142
Target:  5'- uAGAugAACACCGGGcggucauggccGGCCUgCGCCUGGCg -3'
miRNA:   3'- -UCU--UUGUGGUUU-----------UCGGGgGCGGACUG- -5'
26811 3' -53.6 NC_005808.1 + 3788 0.66 0.682207
Target:  5'- -----uGCCGAAAGCCagCGCCUGGa -3'
miRNA:   3'- ucuuugUGGUUUUCGGggGCGGACUg -5'
26811 3' -53.6 NC_005808.1 + 7163 0.68 0.56787
Target:  5'- uGAAGC-CCA--GGCCCgaCGCgCUGACg -3'
miRNA:   3'- uCUUUGuGGUuuUCGGGg-GCG-GACUG- -5'
26811 3' -53.6 NC_005808.1 + 10015 0.7 0.479854
Target:  5'- ---cGCGCCc--GGCCCCCGcCCUGGu -3'
miRNA:   3'- ucuuUGUGGuuuUCGGGGGC-GGACUg -5'
26811 3' -53.6 NC_005808.1 + 10123 0.68 0.579213
Target:  5'- cGGgcGCAUCGGccGCCCCCaCCUcGGCa -3'
miRNA:   3'- -UCuuUGUGGUUuuCGGGGGcGGA-CUG- -5'
26811 3' -53.6 NC_005808.1 + 10689 0.69 0.512177
Target:  5'- cGAAACGCCGcAGGCaCUCgGCCUcGAUg -3'
miRNA:   3'- uCUUUGUGGUuUUCG-GGGgCGGA-CUG- -5'
26811 3' -53.6 NC_005808.1 + 11576 0.67 0.613488
Target:  5'- cGAAGCcauGCCGcccAGGGCCgCCGgCUGGCc -3'
miRNA:   3'- uCUUUG---UGGU---UUUCGGgGGCgGACUG- -5'
26811 3' -53.6 NC_005808.1 + 13535 0.66 0.727137
Target:  5'- ---cGCGCCGAAcuGUCggCCGCCUGACu -3'
miRNA:   3'- ucuuUGUGGUUUu-CGGg-GGCGGACUG- -5'
26811 3' -53.6 NC_005808.1 + 15158 0.66 0.704827
Target:  5'- --cAGCGCC-AGGGCCUgcggCCGCCgGGCg -3'
miRNA:   3'- ucuUUGUGGuUUUCGGG----GGCGGaCUG- -5'
26811 3' -53.6 NC_005808.1 + 16682 0.67 0.636443
Target:  5'- uGGGcCACCGcAAGCUgcaagucgaaaCCCGCCUGAa -3'
miRNA:   3'- uCUUuGUGGUuUUCGG-----------GGGCGGACUg -5'
26811 3' -53.6 NC_005808.1 + 17937 0.67 0.613488
Target:  5'- cGGggGCAC--GAAGCCCCCGUa---- -3'
miRNA:   3'- -UCuuUGUGguUUUCGGGGGCGgacug -5'
26811 3' -53.6 NC_005808.1 + 17989 0.67 0.613488
Target:  5'- cGuuACACCA--AGUCgCCGCCgGACu -3'
miRNA:   3'- uCuuUGUGGUuuUCGGgGGCGGaCUG- -5'
26811 3' -53.6 NC_005808.1 + 18883 0.67 0.636443
Target:  5'- cGAGGCACU---GGCCCgCGaCCUGGg -3'
miRNA:   3'- uCUUUGUGGuuuUCGGGgGC-GGACUg -5'
26811 3' -53.6 NC_005808.1 + 19644 0.67 0.636443
Target:  5'- cAGGAAUACCAGAAGCagaCCgaaGCCUa-- -3'
miRNA:   3'- -UCUUUGUGGUUUUCGg--GGg--CGGAcug -5'
26811 3' -53.6 NC_005808.1 + 19710 0.66 0.727137
Target:  5'- uGGAAGCugCAuaGAGGCgccgcgcaucgCCCUGCUUGGg -3'
miRNA:   3'- -UCUUUGugGU--UUUCG-----------GGGGCGGACUg -5'
26811 3' -53.6 NC_005808.1 + 20107 0.71 0.428337
Target:  5'- cGGGcAugACCAGcccAGCCCgccccugguuCCGCCUGACa -3'
miRNA:   3'- -UCU-UugUGGUUu--UCGGG----------GGCGGACUG- -5'
26811 3' -53.6 NC_005808.1 + 20536 0.69 0.523153
Target:  5'- cAGaAAGCGCCAcacgaugcGgcGCCCCCGCUUGcuGCu -3'
miRNA:   3'- -UC-UUUGUGGU--------UuuCGGGGGCGGAC--UG- -5'
26811 3' -53.6 NC_005808.1 + 21979 0.69 0.523153
Target:  5'- cAGGccGACACCGAccuGCgaCgCCGCCUGGCg -3'
miRNA:   3'- -UCU--UUGUGGUUuu-CGg-G-GGCGGACUG- -5'
26811 3' -53.6 NC_005808.1 + 23208 0.67 0.636443
Target:  5'- uGGAAaccuACGCCGAAguggacaaGGCCCUgGCC-GACc -3'
miRNA:   3'- -UCUU----UGUGGUUU--------UCGGGGgCGGaCUG- -5'
26811 3' -53.6 NC_005808.1 + 24149 0.66 0.704827
Target:  5'- ---cGCGCCu--GGCCCagCGCCUcGACg -3'
miRNA:   3'- ucuuUGUGGuuuUCGGGg-GCGGA-CUG- -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.