miRNA display CGI


Results 1 - 20 of 38 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
23080 5' -53.8 NC_005178.1 + 4020 1.15 0.000332
Target:  5'- cGCCGCUGCGAACUGGAGUUCAUCGGCa -3'
miRNA:   3'- -CGGCGACGCUUGACCUCAAGUAGCCG- -5'
23080 5' -53.8 NC_005178.1 + 10255 0.79 0.118769
Target:  5'- cGCUGCUGCGc-CUGGAGcUUCugcUCGGCg -3'
miRNA:   3'- -CGGCGACGCuuGACCUC-AAGu--AGCCG- -5'
23080 5' -53.8 NC_005178.1 + 11045 0.74 0.252954
Target:  5'- aGuuGCUGCGAGgcuUUGaccGGUUCGUCGGCc -3'
miRNA:   3'- -CggCGACGCUU---GACc--UCAAGUAGCCG- -5'
23080 5' -53.8 NC_005178.1 + 37339 0.74 0.273856
Target:  5'- gGCaaaGCUGuCGGAcCUGGAGaUCAUCGGa -3'
miRNA:   3'- -CGg--CGAC-GCUU-GACCUCaAGUAGCCg -5'
23080 5' -53.8 NC_005178.1 + 5107 0.74 0.273856
Target:  5'- gGCCGCgUGCuGAGCUGG-GUUC--CGGCc -3'
miRNA:   3'- -CGGCG-ACG-CUUGACCuCAAGuaGCCG- -5'
23080 5' -53.8 NC_005178.1 + 4048 0.73 0.311728
Target:  5'- aCCGCUacuucgcccGCGAGCUGGAGgaauucCA-CGGCg -3'
miRNA:   3'- cGGCGA---------CGCUUGACCUCaa----GUaGCCG- -5'
23080 5' -53.8 NC_005178.1 + 8489 0.72 0.371207
Target:  5'- cGCCuCUG-GAGCUGG-GUUCAaguacaccgUCGGCg -3'
miRNA:   3'- -CGGcGACgCUUGACCuCAAGU---------AGCCG- -5'
23080 5' -53.8 NC_005178.1 + 12917 0.71 0.389565
Target:  5'- gGCCGgUGgUGGGCUGGAGgaCGU-GGCg -3'
miRNA:   3'- -CGGCgAC-GCUUGACCUCaaGUAgCCG- -5'
23080 5' -53.8 NC_005178.1 + 28295 0.71 0.415271
Target:  5'- cGgCGCUGCGGgagcugccggggccGCUGGAGUggCuggUGGCg -3'
miRNA:   3'- -CgGCGACGCU--------------UGACCUCAa-Gua-GCCG- -5'
23080 5' -53.8 NC_005178.1 + 13590 0.7 0.437972
Target:  5'- cUCGaCUGCGAGCUGGAuGcUCAU-GGCc -3'
miRNA:   3'- cGGC-GACGCUUGACCU-CaAGUAgCCG- -5'
23080 5' -53.8 NC_005178.1 + 10461 0.7 0.437972
Target:  5'- gGUgGC-GCGAuCUGGAGaUCGUCGaGCg -3'
miRNA:   3'- -CGgCGaCGCUuGACCUCaAGUAGC-CG- -5'
23080 5' -53.8 NC_005178.1 + 10004 0.7 0.458278
Target:  5'- gGCC-CUGUucguuGAGCUGGAGgacUUCcagGUCGGCg -3'
miRNA:   3'- -CGGcGACG-----CUUGACCUC---AAG---UAGCCG- -5'
23080 5' -53.8 NC_005178.1 + 37517 0.7 0.479076
Target:  5'- gGCCGauucCUGCG----GGAGggCAUCGGCa -3'
miRNA:   3'- -CGGC----GACGCuugaCCUCaaGUAGCCG- -5'
23080 5' -53.8 NC_005178.1 + 13218 0.69 0.489647
Target:  5'- gGCCGCUuuGAACggcugggucGGGGccggCGUCGGCa -3'
miRNA:   3'- -CGGCGAcgCUUGa--------CCUCaa--GUAGCCG- -5'
23080 5' -53.8 NC_005178.1 + 26192 0.69 0.500326
Target:  5'- gGCCGCUGCGGGCgUGGcgcuGGcUC--UGGCg -3'
miRNA:   3'- -CGGCGACGCUUG-ACC----UCaAGuaGCCG- -5'
23080 5' -53.8 NC_005178.1 + 15773 0.69 0.500326
Target:  5'- aGCUGCUGCucGAcCUGGAGggCAUUGa- -3'
miRNA:   3'- -CGGCGACG--CUuGACCUCaaGUAGCcg -5'
23080 5' -53.8 NC_005178.1 + 21112 0.69 0.500326
Target:  5'- cGUgGCgGCGAGCUGGcGggCAUCcGCa -3'
miRNA:   3'- -CGgCGaCGCUUGACCuCaaGUAGcCG- -5'
23080 5' -53.8 NC_005178.1 + 14156 0.69 0.506782
Target:  5'- gGCCGCcacgauguuggagGCGAucaaggcggaGCUGGAGUUCAaUCcGCg -3'
miRNA:   3'- -CGGCGa------------CGCU----------UGACCUCAAGU-AGcCG- -5'
23080 5' -53.8 NC_005178.1 + 33192 0.69 0.532947
Target:  5'- cGgCGCUGCGcGACcGGAGUUgcUCGGg -3'
miRNA:   3'- -CgGCGACGC-UUGaCCUCAAguAGCCg -5'
23080 5' -53.8 NC_005178.1 + 26837 0.69 0.537355
Target:  5'- uGCCGCcauccuggcggugagUGCGAcgcgggauuaGCggaaGGGGUUCAaCGGCu -3'
miRNA:   3'- -CGGCG---------------ACGCU----------UGa---CCUCAAGUaGCCG- -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.