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
11307 3' -49.8 NC_003083.1 + 97680 0.66 0.992981
Target:  5'- aCGGGCgGCGGuUGCGg---GCACGGUc -3'
miRNA:   3'- -GCCCG-CGUUuGCGCaauuUGUGUCAa -5'
11307 3' -49.8 NC_003083.1 + 86950 0.66 0.992664
Target:  5'- uGuGGUGCAAAUGCGUgauuccgacggcaaUGAACACGc-- -3'
miRNA:   3'- gC-CCGCGUUUGCGCA--------------AUUUGUGUcaa -5'
11307 3' -49.8 NC_003083.1 + 117199 0.66 0.991881
Target:  5'- -uGGCGCAcuuaguAGCGUGUUAGugGCAa-- -3'
miRNA:   3'- gcCCGCGU------UUGCGCAAUUugUGUcaa -5'
11307 3' -49.8 NC_003083.1 + 82082 0.66 0.991763
Target:  5'- gCGGGUGCGuuaauugAACGUGUUGAaaaaGCAUugGGUa -3'
miRNA:   3'- -GCCCGCGU-------UUGCGCAAUU----UGUG--UCAa -5'
11307 3' -49.8 NC_003083.1 + 108151 0.66 0.990648
Target:  5'- uGGcGCGCAucguCGCGUUGAGCGgAu-- -3'
miRNA:   3'- gCC-CGCGUuu--GCGCAAUUUGUgUcaa -5'
11307 3' -49.8 NC_003083.1 + 94211 0.66 0.989272
Target:  5'- gCGGGCGCGucguGACGCcauuuGUUgGGACGCuGUUu -3'
miRNA:   3'- -GCCCGCGU----UUGCG-----CAA-UUUGUGuCAA- -5'
11307 3' -49.8 NC_003083.1 + 35042 0.67 0.984187
Target:  5'- uGGGCagacGCGCGUUGcGGCACAGg- -3'
miRNA:   3'- gCCCGcguuUGCGCAAU-UUGUGUCaa -5'
11307 3' -49.8 NC_003083.1 + 85502 0.67 0.979896
Target:  5'- uGGcGCGCAAgcaauugaacucGCGCGUcauGCACAGc- -3'
miRNA:   3'- gCC-CGCGUU------------UGCGCAauuUGUGUCaa -5'
11307 3' -49.8 NC_003083.1 + 88005 0.68 0.961877
Target:  5'- gCGGGCaacuGCGCGUUuuuuAACAUAGUa -3'
miRNA:   3'- -GCCCGcguuUGCGCAAu---UUGUGUCAa -5'
11307 3' -49.8 NC_003083.1 + 28338 0.69 0.953941
Target:  5'- cCGGGgGCAAugcACGCGcgcGGACGCGGc- -3'
miRNA:   3'- -GCCCgCGUU---UGCGCaa-UUUGUGUCaa -5'
11307 3' -49.8 NC_003083.1 + 81263 0.69 0.953941
Target:  5'- gGGGCGUGuAACGCGUU----GCAGUUu -3'
miRNA:   3'- gCCCGCGU-UUGCGCAAuuugUGUCAA- -5'
11307 3' -49.8 NC_003083.1 + 62943 0.71 0.891095
Target:  5'- --cGUGCGAGCGCGUUGAACGCc--- -3'
miRNA:   3'- gccCGCGUUUGCGCAAUUUGUGucaa -5'
11307 3' -49.8 NC_003083.1 + 61645 0.71 0.883766
Target:  5'- aCGGGCGCuggugguauAACuGgGUUAAACGCAGc- -3'
miRNA:   3'- -GCCCGCGu--------UUG-CgCAAUUUGUGUCaa -5'
11307 3' -49.8 NC_003083.1 + 27230 0.72 0.843407
Target:  5'- aCGGG-GCAAGCGCGUgc-GCACuGGUa -3'
miRNA:   3'- -GCCCgCGUUUGCGCAauuUGUG-UCAa -5'
11307 3' -49.8 NC_003083.1 + 58833 0.74 0.737026
Target:  5'- cCGGGCGC--GCGCGUaucGCACGGg- -3'
miRNA:   3'- -GCCCGCGuuUGCGCAauuUGUGUCaa -5'
11307 3' -49.8 NC_003083.1 + 73676 1.06 0.013061
Target:  5'- gCGGGCGCAAACGCGUUAAACACAGUUu -3'
miRNA:   3'- -GCCCGCGUUUGCGCAAUUUGUGUCAA- -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.