miRNA display CGI


Results 1 - 20 of 26 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
27952 3' -52.3 NC_005886.2 + 43881 1.15 0.000605
Target:  5'- cGGCUGCAUUCCCAAUUGCACCGCACCu -3'
miRNA:   3'- -CCGACGUAAGGGUUAACGUGGCGUGG- -5'
27952 3' -52.3 NC_005886.2 + 28347 0.77 0.264627
Target:  5'- uGGCUGUgguacgauGUUCCCAAcgGUugCGCACa -3'
miRNA:   3'- -CCGACG--------UAAGGGUUaaCGugGCGUGg -5'
27952 3' -52.3 NC_005886.2 + 37278 0.76 0.286329
Target:  5'- cGGgUGCGgacgUgCCGAcgacgaaguaUUGCGCCGCGCCa -3'
miRNA:   3'- -CCgACGUa---AgGGUU----------AACGUGGCGUGG- -5'
27952 3' -52.3 NC_005886.2 + 32534 0.73 0.405855
Target:  5'- cGCUGCAaaCCCugcaUGCGCUGCACg -3'
miRNA:   3'- cCGACGUaaGGGuua-ACGUGGCGUGg -5'
27952 3' -52.3 NC_005886.2 + 44117 0.73 0.405855
Target:  5'- uGCUGCGgaaCgCCGGccgcUUGCAUCGCACCu -3'
miRNA:   3'- cCGACGUaa-G-GGUU----AACGUGGCGUGG- -5'
27952 3' -52.3 NC_005886.2 + 43835 0.73 0.415515
Target:  5'- uGCUGCGcgCCCAA---CGCUGCGCCa -3'
miRNA:   3'- cCGACGUaaGGGUUaacGUGGCGUGG- -5'
27952 3' -52.3 NC_005886.2 + 25764 0.72 0.486836
Target:  5'- uGGCUGCGUUCaacgggugaCGAUcacGCAUCGCgGCCg -3'
miRNA:   3'- -CCGACGUAAGg--------GUUAa--CGUGGCG-UGG- -5'
27952 3' -52.3 NC_005886.2 + 38917 0.72 0.497503
Target:  5'- cGCUGCcgUCgUCGAUcgGCGCUGCugCg -3'
miRNA:   3'- cCGACGuaAG-GGUUAa-CGUGGCGugG- -5'
27952 3' -52.3 NC_005886.2 + 25892 0.71 0.540031
Target:  5'- gGGCUGguUUCgCA--UGCACCagauucaccaaacGCGCCg -3'
miRNA:   3'- -CCGACguAAGgGUuaACGUGG-------------CGUGG- -5'
27952 3' -52.3 NC_005886.2 + 44814 0.7 0.597318
Target:  5'- cGGCaagucuUGCAUcuUCaUCGAgUGCACUGCACCc -3'
miRNA:   3'- -CCG------ACGUA--AG-GGUUaACGUGGCGUGG- -5'
27952 3' -52.3 NC_005886.2 + 30056 0.69 0.662233
Target:  5'- cGCUGUcacgUCCgGAUcaugucggagaucgUGCGCCGCGCg -3'
miRNA:   3'- cCGACGua--AGGgUUA--------------ACGUGGCGUGg -5'
27952 3' -52.3 NC_005886.2 + 21204 0.68 0.688267
Target:  5'- uGCUGUuuGUUCgCGA--GCACCuGCGCCg -3'
miRNA:   3'- cCGACG--UAAGgGUUaaCGUGG-CGUGG- -5'
27952 3' -52.3 NC_005886.2 + 38598 0.67 0.743601
Target:  5'- uGCUugGUGUUgCCGGccGCGCCGCACUu -3'
miRNA:   3'- cCGA--CGUAAgGGUUaaCGUGGCGUGG- -5'
27952 3' -52.3 NC_005886.2 + 40331 0.67 0.743601
Target:  5'- uGGCgUGCGUuauagUCgCCAGU--CGCCGCGCUg -3'
miRNA:   3'- -CCG-ACGUA-----AG-GGUUAacGUGGCGUGG- -5'
27952 3' -52.3 NC_005886.2 + 41112 0.67 0.75862
Target:  5'- cGCUGCAcaacuugcuuuuguuUUCCCGAU--CACCGcCACg -3'
miRNA:   3'- cCGACGU---------------AAGGGUUAacGUGGC-GUGg -5'
27952 3' -52.3 NC_005886.2 + 10197 0.67 0.764976
Target:  5'- cGGggGCAaugaaugCCCAuAUUGCAgCCGCugCa -3'
miRNA:   3'- -CCgaCGUaa-----GGGU-UAACGU-GGCGugG- -5'
27952 3' -52.3 NC_005886.2 + 35448 0.67 0.77545
Target:  5'- -aCUGCGcgCCC-GUUGCACCcggcGCGCUg -3'
miRNA:   3'- ccGACGUaaGGGuUAACGUGG----CGUGG- -5'
27952 3' -52.3 NC_005886.2 + 24153 0.67 0.785766
Target:  5'- cGCUugcGCGUUCuCCAAgUGUGCCGCuuCg -3'
miRNA:   3'- cCGA---CGUAAG-GGUUaACGUGGCGugG- -5'
27952 3' -52.3 NC_005886.2 + 3634 0.67 0.785766
Target:  5'- cGGUUcGC---CCCAAUUGCaguGCgGCACCc -3'
miRNA:   3'- -CCGA-CGuaaGGGUUAACG---UGgCGUGG- -5'
27952 3' -52.3 NC_005886.2 + 39016 0.66 0.795909
Target:  5'- cGCUGCAUcCCCugucgaGCAgcCCGCAgCa -3'
miRNA:   3'- cCGACGUAaGGGuuaa--CGU--GGCGUgG- -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.