miRNA display CGI


Results 21 - 40 of 66 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
28027 3' -56.4 NC_005887.1 + 29486 0.74 0.206757
Target:  5'- aCAGcacgaugUCGUagccGGCGGCCUCGAcgGCGGGCg -3'
miRNA:   3'- -GUCa------AGCG----CCGCUGGAGCU--UGUCCGg -5'
28027 3' -56.4 NC_005887.1 + 27983 0.72 0.261837
Target:  5'- -----aGCGGCGA-CUCGAACAGGUg -3'
miRNA:   3'- gucaagCGCCGCUgGAGCUUGUCCGg -5'
28027 3' -56.4 NC_005887.1 + 27538 0.66 0.613832
Target:  5'- uCAGcgUCGCGGCcGCCagaUUGAuCGGGUCc -3'
miRNA:   3'- -GUCa-AGCGCCGcUGG---AGCUuGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 27421 0.66 0.602796
Target:  5'- gCAGcgCGCGGCGugCgUCGAucgcgagugauuGCAgcGGCa -3'
miRNA:   3'- -GUCaaGCGCCGCugG-AGCU------------UGU--CCGg -5'
28027 3' -56.4 NC_005887.1 + 26902 0.68 0.474651
Target:  5'- gCGGUcaUCGCGGCGACgUCGucCGGuugaCCg -3'
miRNA:   3'- -GUCA--AGCGCCGCUGgAGCuuGUCc---GG- -5'
28027 3' -56.4 NC_005887.1 + 26087 0.66 0.590686
Target:  5'- gCGGcccgCGCGGCGuuucaugGCgUCGAGCAGGa- -3'
miRNA:   3'- -GUCaa--GCGCCGC-------UGgAGCUUGUCCgg -5'
28027 3' -56.4 NC_005887.1 + 26025 1.12 0.000372
Target:  5'- gCAGUUCGCGGCGACCUCGAACAGGCCg -3'
miRNA:   3'- -GUCAAGCGCCGCUGGAGCUUGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 24966 0.68 0.474651
Target:  5'- ---cUUGCGcGCGGCCgCGAgggACAGGUCg -3'
miRNA:   3'- gucaAGCGC-CGCUGGaGCU---UGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 24599 0.74 0.218062
Target:  5'- gGGUUCGCGGCGAUgaUCuuGC-GGCCg -3'
miRNA:   3'- gUCAAGCGCCGCUGg-AGcuUGuCCGG- -5'
28027 3' -56.4 NC_005887.1 + 24341 0.71 0.320317
Target:  5'- aAGcgCGCGGCGGuCCcauUCGGuCAGGCUg -3'
miRNA:   3'- gUCaaGCGCCGCU-GG---AGCUuGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 21250 0.69 0.434906
Target:  5'- -uGUUUGCGGCGACCgcgcCGAuaccguuCAaGCCa -3'
miRNA:   3'- guCAAGCGCCGCUGGa---GCUu------GUcCGG- -5'
28027 3' -56.4 NC_005887.1 + 20443 0.77 0.122295
Target:  5'- aCAGUcgUCGUGGCGGCaagCGAgauacgcGCGGGCCa -3'
miRNA:   3'- -GUCA--AGCGCCGCUGga-GCU-------UGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 19052 0.67 0.526732
Target:  5'- gCAGU--GCGGCGuuguuCUUCGGcGCGGGCUg -3'
miRNA:   3'- -GUCAagCGCCGCu----GGAGCU-UGUCCGG- -5'
28027 3' -56.4 NC_005887.1 + 18547 0.67 0.505615
Target:  5'- uCGGUggGCGGCGGCgC-CGGcuucGCGGGCg -3'
miRNA:   3'- -GUCAagCGCCGCUG-GaGCU----UGUCCGg -5'
28027 3' -56.4 NC_005887.1 + 16861 0.66 0.580809
Target:  5'- aGGUguacCGCGGCGcggacGgCUCGA-CAGGCa -3'
miRNA:   3'- gUCAa---GCGCCGC-----UgGAGCUuGUCCGg -5'
28027 3' -56.4 NC_005887.1 + 16166 0.69 0.397156
Target:  5'- gAGUgCGCGaGCGAUCgaggCGAACcugcgcgaagAGGCCg -3'
miRNA:   3'- gUCAaGCGC-CGCUGGa---GCUUG----------UCCGG- -5'
28027 3' -56.4 NC_005887.1 + 15428 0.69 0.397156
Target:  5'- uGGUUCGUcgacGGCGGCCagCGAcuCGGGCg -3'
miRNA:   3'- gUCAAGCG----CCGCUGGa-GCUu-GUCCGg -5'
28027 3' -56.4 NC_005887.1 + 15265 0.66 0.580809
Target:  5'- gCAGUgcugCGCGGCGAgcguCCgccggCGAACGagacuGCCg -3'
miRNA:   3'- -GUCAa---GCGCCGCU----GGa----GCUUGUc----CGG- -5'
28027 3' -56.4 NC_005887.1 + 14718 0.68 0.454543
Target:  5'- -cGggCGCGGCGA--UCGcGCAGGCg -3'
miRNA:   3'- guCaaGCGCCGCUggAGCuUGUCCGg -5'
28027 3' -56.4 NC_005887.1 + 14337 0.66 0.602796
Target:  5'- aGGUgaaCGCGGCGAUCgUGaAGCAGcguGCCg -3'
miRNA:   3'- gUCAa--GCGCCGCUGGaGC-UUGUC---CGG- -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.