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
12507 3' -59.9 NC_003345.1 + 38675 0.66 0.571624
Target:  5'- -uUUCCGCgaCCUcggcagagcagGGUUCCGUCUUCCa- -3'
miRNA:   3'- uuAAGGCG--GGG-----------CCAAGGCAGAGGGgc -5'
12507 3' -59.9 NC_003345.1 + 802 0.67 0.511001
Target:  5'- uAGUUCU-CUCCGGUUCCGg--CCCCu -3'
miRNA:   3'- -UUAAGGcGGGGCCAAGGCagaGGGGc -5'
12507 3' -59.9 NC_003345.1 + 2913 0.67 0.481689
Target:  5'- ---gCgGCUCCGGggUUCGaCUCCCCGg -3'
miRNA:   3'- uuaaGgCGGGGCCa-AGGCaGAGGGGC- -5'
12507 3' -59.9 NC_003345.1 + 569 0.68 0.475923
Target:  5'- ---cCCGCCCCGGUUugauguuaaccggggCgGUCggCCCCc -3'
miRNA:   3'- uuaaGGCGGGGCCAA---------------GgCAGa-GGGGc -5'
12507 3' -59.9 NC_003345.1 + 48588 0.68 0.462606
Target:  5'- ---aCCGCCCCGGccagCCGUUcaCUCCGu -3'
miRNA:   3'- uuaaGGCGGGGCCaa--GGCAGa-GGGGC- -5'
12507 3' -59.9 NC_003345.1 + 359 0.68 0.453216
Target:  5'- --cUCU-CCCCGuccgUCCGUCUCUCCGg -3'
miRNA:   3'- uuaAGGcGGGGCca--AGGCAGAGGGGC- -5'
12507 3' -59.9 NC_003345.1 + 141 0.68 0.432019
Target:  5'- uGGUUCCGUCCCcugcccccugcccgUCCGUCUCUCCc -3'
miRNA:   3'- -UUAAGGCGGGGcca-----------AGGCAGAGGGGc -5'
12507 3' -59.9 NC_003345.1 + 77428 0.68 0.432019
Target:  5'- uGGUUCCGUCCCcugcccccugcccgUCCGUCUCUCCc -3'
miRNA:   3'- -UUAAGGCGGGGcca-----------AGGCAGAGGGGc -5'
12507 3' -59.9 NC_003345.1 + 211 0.69 0.382094
Target:  5'- ---cCUGCCCCGcgcGggCCGUCUCUCCc -3'
miRNA:   3'- uuaaGGCGGGGC---CaaGGCAGAGGGGc -5'
12507 3' -59.9 NC_003345.1 + 77498 0.69 0.382094
Target:  5'- ---cCUGCCCCGcgcGggCCGUCUCUCCc -3'
miRNA:   3'- uuaaGGCGGGGC---CaaGGCAGAGGGGc -5'
12507 3' -59.9 NC_003345.1 + 65648 0.7 0.36551
Target:  5'- ---gCCGCCCCGGUUacgaCGaCUCCgCUGg -3'
miRNA:   3'- uuaaGGCGGGGCCAAg---GCaGAGG-GGC- -5'
12507 3' -59.9 NC_003345.1 + 69953 0.71 0.290239
Target:  5'- aAGUUCCGCUCCGcUUCgucguugugaGUCUCCCCa -3'
miRNA:   3'- -UUAAGGCGGGGCcAAGg---------CAGAGGGGc -5'
12507 3' -59.9 NC_003345.1 + 32428 0.74 0.206024
Target:  5'- --cUUCGCCCCGGUcgUCCGUCUCaaugUCGa -3'
miRNA:   3'- uuaAGGCGGGGCCA--AGGCAGAGg---GGC- -5'
12507 3' -59.9 NC_003345.1 + 1199 0.74 0.206024
Target:  5'- -uUUCCGCCCCGGccccuaagggCCGguaaaUCUCCCCc -3'
miRNA:   3'- uuAAGGCGGGGCCaa--------GGC-----AGAGGGGc -5'
12507 3' -59.9 NC_003345.1 + 325 0.76 0.151502
Target:  5'- --gUCCGUcucUCCGGUUCCGUCcgucucUCCCCGu -3'
miRNA:   3'- uuaAGGCG---GGGCCAAGGCAG------AGGGGC- -5'
12507 3' -59.9 NC_003345.1 + 941 1.07 0.000851
Target:  5'- cAAUUCCGCCCCGGUUCCGUCUCCCCGg -3'
miRNA:   3'- -UUAAGGCGGGGCCAAGGCAGAGGGGC- -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.