miRNA display CGI


Results 1 - 19 of 19 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
11547 3' -56.6 NC_003085.1 + 26122 0.66 0.633165
Target:  5'- uGCUC-GAUG-CGCUCGCCcugCUCc- -3'
miRNA:   3'- gCGAGaCUACgGCGAGCGGaa-GAGcg -5'
11547 3' -56.6 NC_003085.1 + 17757 0.66 0.622167
Target:  5'- uGCUcCUGccugGCCGCgUCGUCggUCUCaGCg -3'
miRNA:   3'- gCGA-GACua--CGGCG-AGCGGa-AGAG-CG- -5'
11547 3' -56.6 NC_003085.1 + 9835 0.66 0.611178
Target:  5'- gCGCUU--GUGaaGCUCGCUUUCcaagCGCg -3'
miRNA:   3'- -GCGAGacUACggCGAGCGGAAGa---GCG- -5'
11547 3' -56.6 NC_003085.1 + 32896 0.66 0.589264
Target:  5'- aGCaUC-GggGCCGUcCGCCUUCgacgUCGCg -3'
miRNA:   3'- gCG-AGaCuaCGGCGaGCGGAAG----AGCG- -5'
11547 3' -56.6 NC_003085.1 + 39101 0.67 0.567493
Target:  5'- gCGCUCgcccacgcAUGCCG-UCGCCUcCUcCGCg -3'
miRNA:   3'- -GCGAGac------UACGGCgAGCGGAaGA-GCG- -5'
11547 3' -56.6 NC_003085.1 + 23201 0.67 0.567493
Target:  5'- aGCUCUGcgccgucuUGCgGUgcugCGCCgcCUCGCu -3'
miRNA:   3'- gCGAGACu-------ACGgCGa---GCGGaaGAGCG- -5'
11547 3' -56.6 NC_003085.1 + 39499 0.67 0.567493
Target:  5'- gCGCUCgaGAaGCCGgUgCGCCUcgUCGCu -3'
miRNA:   3'- -GCGAGa-CUaCGGCgA-GCGGAagAGCG- -5'
11547 3' -56.6 NC_003085.1 + 22324 0.67 0.556683
Target:  5'- gGC-CUGcUGCCGCUC-CUUcgUCUCGUu -3'
miRNA:   3'- gCGaGACuACGGCGAGcGGA--AGAGCG- -5'
11547 3' -56.6 NC_003085.1 + 13651 0.67 0.556683
Target:  5'- gCGcCUCcGGUGCCcacguccacGCgCGCCUUgCUCGCc -3'
miRNA:   3'- -GC-GAGaCUACGG---------CGaGCGGAA-GAGCG- -5'
11547 3' -56.6 NC_003085.1 + 23734 0.67 0.556683
Target:  5'- aCGC-CUGGgcGgCGUUCGCCUgcgcggccugCUCGCg -3'
miRNA:   3'- -GCGaGACUa-CgGCGAGCGGAa---------GAGCG- -5'
11547 3' -56.6 NC_003085.1 + 24797 0.68 0.514112
Target:  5'- ----aUGGUGCCGCUCaGCCcgUCgcggCGCg -3'
miRNA:   3'- gcgagACUACGGCGAG-CGGa-AGa---GCG- -5'
11547 3' -56.6 NC_003085.1 + 25096 0.68 0.514112
Target:  5'- gCGCgggugaUGGUGCCcaGCggCGCCUUCUgcacCGCg -3'
miRNA:   3'- -GCGag----ACUACGG--CGa-GCGGAAGA----GCG- -5'
11547 3' -56.6 NC_003085.1 + 32776 0.68 0.514112
Target:  5'- aCGCaCUGuUGCCGCaaUGCCUUUcCGCa -3'
miRNA:   3'- -GCGaGACuACGGCGa-GCGGAAGaGCG- -5'
11547 3' -56.6 NC_003085.1 + 36151 0.68 0.503671
Target:  5'- gGCUCgcUGAUGauggucgccgaCCGCUCGCCgcgaUUCGUa -3'
miRNA:   3'- gCGAG--ACUAC-----------GGCGAGCGGaa--GAGCG- -5'
11547 3' -56.6 NC_003085.1 + 31181 0.68 0.483074
Target:  5'- uGCUCggGGUugaGCCGCUCGCCgcuuaUgGCc -3'
miRNA:   3'- gCGAGa-CUA---CGGCGAGCGGaag--AgCG- -5'
11547 3' -56.6 NC_003085.1 + 13247 0.68 0.462892
Target:  5'- uGCUgUGGUGCCGCUCuGagaaCUUGCa -3'
miRNA:   3'- gCGAgACUACGGCGAG-CggaaGAGCG- -5'
11547 3' -56.6 NC_003085.1 + 31010 0.69 0.443161
Target:  5'- gGgUCUGcgGCUGCcugUCGCacCUUCUCGUa -3'
miRNA:   3'- gCgAGACuaCGGCG---AGCG--GAAGAGCG- -5'
11547 3' -56.6 NC_003085.1 + 16952 0.69 0.414478
Target:  5'- uCGCUCg---GCCucGUUgGCCUUCUCGUu -3'
miRNA:   3'- -GCGAGacuaCGG--CGAgCGGAAGAGCG- -5'
11547 3' -56.6 NC_003085.1 + 16841 1.12 0.000386
Target:  5'- uCGCUCUGAUGCCGCUCGCCUUCUCGCg -3'
miRNA:   3'- -GCGAGACUACGGCGAGCGGAAGAGCG- -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.