miRNA display CGI


Results 1 - 20 of 30 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
23406 3' -55.8 NC_005259.1 + 61913 0.66 0.763777
Target:  5'- uCGCCgGuCGUcgUCGGC-AGCUCGGUCu- -3'
miRNA:   3'- -GCGGgC-GCG--AGCUGuUCGAGUUAGca -5'
23406 3' -55.8 NC_005259.1 + 63031 0.66 0.7537
Target:  5'- uGCCCGCGagcugaCUCGACA-GCagCGGUgCGUa -3'
miRNA:   3'- gCGGGCGC------GAGCUGUuCGa-GUUA-GCA- -5'
23406 3' -55.8 NC_005259.1 + 50486 0.66 0.7537
Target:  5'- -aCCC-UGCUCGAUGAGC-CGGUCGa -3'
miRNA:   3'- gcGGGcGCGAGCUGUUCGaGUUAGCa -5'
23406 3' -55.8 NC_005259.1 + 36474 0.66 0.752686
Target:  5'- cCGCCCaccacccgaucucGCGgUCGACGggcAGCUCuggCGUg -3'
miRNA:   3'- -GCGGG-------------CGCgAGCUGU---UCGAGuuaGCA- -5'
23406 3' -55.8 NC_005259.1 + 15849 0.66 0.743504
Target:  5'- gGCUCGgGCaUCGcCAAGCUCGccgcucucAUCGg -3'
miRNA:   3'- gCGGGCgCG-AGCuGUUCGAGU--------UAGCa -5'
23406 3' -55.8 NC_005259.1 + 31830 0.66 0.7332
Target:  5'- gCGCCCGCG-UCGAUcuuCUCGcgCGUg -3'
miRNA:   3'- -GCGGGCGCgAGCUGuucGAGUuaGCA- -5'
23406 3' -55.8 NC_005259.1 + 19080 0.66 0.7332
Target:  5'- gGUCCgGCGCUaCGACAAGCU-GcgCGa -3'
miRNA:   3'- gCGGG-CGCGA-GCUGUUCGAgUuaGCa -5'
23406 3' -55.8 NC_005259.1 + 36625 0.66 0.7332
Target:  5'- cCGCCCGCGC-CGcccGCAAgGCccgCGAUCa- -3'
miRNA:   3'- -GCGGGCGCGaGC---UGUU-CGa--GUUAGca -5'
23406 3' -55.8 NC_005259.1 + 44565 0.66 0.722797
Target:  5'- gGCagCGCGCcgacCGGCAGGCUCAugauguUCGg -3'
miRNA:   3'- gCGg-GCGCGa---GCUGUUCGAGUu-----AGCa -5'
23406 3' -55.8 NC_005259.1 + 27423 0.66 0.722797
Target:  5'- uGCCCGCGag-GAauuGGCUCAcgCGUc -3'
miRNA:   3'- gCGGGCGCgagCUgu-UCGAGUuaGCA- -5'
23406 3' -55.8 NC_005259.1 + 42542 0.66 0.720706
Target:  5'- gGCaCCGagguggcgggcaGCUCGGCGAGCagcCGGUCGUc -3'
miRNA:   3'- gCG-GGCg-----------CGAGCUGUUCGa--GUUAGCA- -5'
23406 3' -55.8 NC_005259.1 + 40114 0.67 0.712308
Target:  5'- gGCgaaUGCGCUCGuggaauuggcggGCGAGCUCGccGUCGg -3'
miRNA:   3'- gCGg--GCGCGAGC------------UGUUCGAGU--UAGCa -5'
23406 3' -55.8 NC_005259.1 + 43901 0.67 0.711255
Target:  5'- uGCCCGCGCcggcugaUCGAUggGCagCGA-CGa -3'
miRNA:   3'- gCGGGCGCG-------AGCUGuuCGa-GUUaGCa -5'
23406 3' -55.8 NC_005259.1 + 62399 0.67 0.701743
Target:  5'- cCGCCCGCcuGCUCGACcacGGCacccguAUCGg -3'
miRNA:   3'- -GCGGGCG--CGAGCUGu--UCGagu---UAGCa -5'
23406 3' -55.8 NC_005259.1 + 40163 0.67 0.691113
Target:  5'- uGCCCGCcC-CGGC-AGCUCGAcCGUc -3'
miRNA:   3'- gCGGGCGcGaGCUGuUCGAGUUaGCA- -5'
23406 3' -55.8 NC_005259.1 + 50413 0.67 0.680427
Target:  5'- gCGCCgGUGcCUUGACcGGCUCGGgcagCGg -3'
miRNA:   3'- -GCGGgCGC-GAGCUGuUCGAGUUa---GCa -5'
23406 3' -55.8 NC_005259.1 + 4198 0.67 0.680427
Target:  5'- --aCCGCaaGCUCGACAcGCUCA-UCGa -3'
miRNA:   3'- gcgGGCG--CGAGCUGUuCGAGUuAGCa -5'
23406 3' -55.8 NC_005259.1 + 9893 0.67 0.658934
Target:  5'- -cCUCGCGCgCGACGAGCUU--UCGg -3'
miRNA:   3'- gcGGGCGCGaGCUGUUCGAGuuAGCa -5'
23406 3' -55.8 NC_005259.1 + 18482 0.68 0.604949
Target:  5'- uGCCCGaCGC-CGACGAGCUacgcCGa -3'
miRNA:   3'- gCGGGC-GCGaGCUGUUCGAguuaGCa -5'
23406 3' -55.8 NC_005259.1 + 44247 0.69 0.54098
Target:  5'- cCGCCCGCGCgCGAgAAGUcggCGAcaUCGa -3'
miRNA:   3'- -GCGGGCGCGaGCUgUUCGa--GUU--AGCa -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.