miRNA display CGI


Results 1 - 20 of 24 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
17203 3' -58.5 NC_004333.2 + 11527 0.66 0.548037
Target:  5'- aAgGCGUCAUGUCgaGCUUgaugucgaaGCCCgCGUUGc -3'
miRNA:   3'- gUgCGCAGUACAG--CGAG---------CGGG-GCAGC- -5'
17203 3' -58.5 NC_004333.2 + 17167 0.66 0.537563
Target:  5'- uGCGCGUCGacaagGcCGCUgcgaGCCCCGaUCu -3'
miRNA:   3'- gUGCGCAGUa----CaGCGAg---CGGGGC-AGc -5'
17203 3' -58.5 NC_004333.2 + 23818 0.66 0.527159
Target:  5'- uGCG-GUCAUGUCGaUCGCCUCacgCGg -3'
miRNA:   3'- gUGCgCAGUACAGCgAGCGGGGca-GC- -5'
17203 3' -58.5 NC_004333.2 + 42179 0.66 0.516831
Target:  5'- aCugGCG-CAccUCGCgacaCGCCUCGUCGc -3'
miRNA:   3'- -GugCGCaGUacAGCGa---GCGGGGCAGC- -5'
17203 3' -58.5 NC_004333.2 + 697 0.66 0.516831
Target:  5'- aGCGCGaUCGUGcCGC-CGCCCgCGa-- -3'
miRNA:   3'- gUGCGC-AGUACaGCGaGCGGG-GCagc -5'
17203 3' -58.5 NC_004333.2 + 26614 0.66 0.506585
Target:  5'- gGCGCGggcucCGUGcaguUCGC-CGCaCCUGUCGg -3'
miRNA:   3'- gUGCGCa----GUAC----AGCGaGCG-GGGCAGC- -5'
17203 3' -58.5 NC_004333.2 + 6408 0.67 0.496427
Target:  5'- cCACGCG-CAUG-CGgUCGUgCCGUaCGg -3'
miRNA:   3'- -GUGCGCaGUACaGCgAGCGgGGCA-GC- -5'
17203 3' -58.5 NC_004333.2 + 44892 0.67 0.496427
Target:  5'- aGCGuCGUcCAUGUC-CUCGCCgagCGUCGc -3'
miRNA:   3'- gUGC-GCA-GUACAGcGAGCGGg--GCAGC- -5'
17203 3' -58.5 NC_004333.2 + 30850 0.67 0.496427
Target:  5'- aACGuCGUCAUGaCGgUCGCCgCGcCGu -3'
miRNA:   3'- gUGC-GCAGUACaGCgAGCGGgGCaGC- -5'
17203 3' -58.5 NC_004333.2 + 31466 0.67 0.486362
Target:  5'- uGCGCGaaUCugcuUGUCGaUCGCUuuGUCGg -3'
miRNA:   3'- gUGCGC--AGu---ACAGCgAGCGGggCAGC- -5'
17203 3' -58.5 NC_004333.2 + 37253 0.67 0.46653
Target:  5'- gCGCGCGUCgugagcggcGUGUCGC-CGCgCUG-CGg -3'
miRNA:   3'- -GUGCGCAG---------UACAGCGaGCGgGGCaGC- -5'
17203 3' -58.5 NC_004333.2 + 19696 0.67 0.46653
Target:  5'- --aGCGUCGgccgCGCUCGCCgCGcUCGc -3'
miRNA:   3'- gugCGCAGUaca-GCGAGCGGgGC-AGC- -5'
17203 3' -58.5 NC_004333.2 + 13926 0.67 0.456771
Target:  5'- gGCGCGcUCaAUG-CGCUCGacgcggcgCCCGUCGu -3'
miRNA:   3'- gUGCGC-AG-UACaGCGAGCg-------GGGCAGC- -5'
17203 3' -58.5 NC_004333.2 + 30172 0.67 0.447124
Target:  5'- uGCGCGg---GUCGCgcaucgacgCGUUCCGUCGg -3'
miRNA:   3'- gUGCGCaguaCAGCGa--------GCGGGGCAGC- -5'
17203 3' -58.5 NC_004333.2 + 5774 0.68 0.428175
Target:  5'- uCACG-GUCGauagccucUCGCauUCGCCCCGUCGc -3'
miRNA:   3'- -GUGCgCAGUac------AGCG--AGCGGGGCAGC- -5'
17203 3' -58.5 NC_004333.2 + 13722 0.68 0.428175
Target:  5'- aGCGCGUCca--UGCUCGUgCCGUUGa -3'
miRNA:   3'- gUGCGCAGuacaGCGAGCGgGGCAGC- -5'
17203 3' -58.5 NC_004333.2 + 2209 0.68 0.418881
Target:  5'- gUACGCGaUCGUGUaguUGUUCGCCgCGUUc -3'
miRNA:   3'- -GUGCGC-AGUACA---GCGAGCGGgGCAGc -5'
17203 3' -58.5 NC_004333.2 + 41378 0.69 0.365785
Target:  5'- uCGCGCG-CcgGgcgaGCUCgGCCUCGUCGa -3'
miRNA:   3'- -GUGCGCaGuaCag--CGAG-CGGGGCAGC- -5'
17203 3' -58.5 NC_004333.2 + 43572 0.71 0.28108
Target:  5'- gGCGUGUCGcG-CGCUCGCCUCGaacgCGa -3'
miRNA:   3'- gUGCGCAGUaCaGCGAGCGGGGCa---GC- -5'
17203 3' -58.5 NC_004333.2 + 23244 0.71 0.260856
Target:  5'- aCGCGCcgGUCGUGUUGUUCGUgaCCGUCc -3'
miRNA:   3'- -GUGCG--CAGUACAGCGAGCGg-GGCAGc -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.