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
28819 3' -45.8 NC_006146.1 + 100110 0.66 0.999989
Target:  5'- gGCgaACGGuCAGAUUUUUCAgaaugucuuccaucUCCGGg -3'
miRNA:   3'- aCGagUGUCuGUCUAAAAAGU--------------AGGUC- -5'
28819 3' -45.8 NC_006146.1 + 158606 0.66 0.999981
Target:  5'- cGCUC-CAG-CAGGUUcuggUUCAgcugCCAGu -3'
miRNA:   3'- aCGAGuGUCuGUCUAAa---AAGUa---GGUC- -5'
28819 3' -45.8 NC_006146.1 + 58276 0.66 0.999974
Target:  5'- cUGCUgACAGACAcGAUggcaaUCA-CCGGa -3'
miRNA:   3'- -ACGAgUGUCUGU-CUAaaa--AGUaGGUC- -5'
28819 3' -45.8 NC_006146.1 + 41095 0.66 0.999974
Target:  5'- gGC-CGCGGGC-GAUUUUUCAgacgCCGa -3'
miRNA:   3'- aCGaGUGUCUGuCUAAAAAGUa---GGUc -5'
28819 3' -45.8 NC_006146.1 + 124199 0.67 0.999951
Target:  5'- cGCUgaGCAGGCAGGUgggugUAUUCAGu -3'
miRNA:   3'- aCGAg-UGUCUGUCUAaaaa-GUAGGUC- -5'
28819 3' -45.8 NC_006146.1 + 73602 0.67 0.999913
Target:  5'- aGCUCACgGGGCAGuaUUUUCGaCCGa -3'
miRNA:   3'- aCGAGUG-UCUGUCuaAAAAGUaGGUc -5'
28819 3' -45.8 NC_006146.1 + 67773 0.67 0.999885
Target:  5'- gUGUUCACAGAcCGGAgcug-CAUCUAc -3'
miRNA:   3'- -ACGAGUGUCU-GUCUaaaaaGUAGGUc -5'
28819 3' -45.8 NC_006146.1 + 68643 0.67 0.999885
Target:  5'- gGCUCGCugAGACAGGUUUaucugcucgccgUUCAagCCAa -3'
miRNA:   3'- aCGAGUG--UCUGUCUAAA------------AAGUa-GGUc -5'
28819 3' -45.8 NC_006146.1 + 116799 0.68 0.99975
Target:  5'- cGCUCAaGGGCGuGGUggagggCGUCCAGg -3'
miRNA:   3'- aCGAGUgUCUGU-CUAaaaa--GUAGGUC- -5'
28819 3' -45.8 NC_006146.1 + 49259 0.7 0.998117
Target:  5'- aUGCUCugAGGCGGAgaagggggcgaucUgGUCCAGg -3'
miRNA:   3'- -ACGAGugUCUGUCUaaaa---------AgUAGGUC- -5'
28819 3' -45.8 NC_006146.1 + 87162 0.7 0.997854
Target:  5'- cUGCUCACGGcccACAGGggguugUUUUUggCCAGg -3'
miRNA:   3'- -ACGAGUGUC---UGUCUa-----AAAAGuaGGUC- -5'
28819 3' -45.8 NC_006146.1 + 106160 0.71 0.996359
Target:  5'- cGCUCGCAuGCAGGc----CAUCCAGa -3'
miRNA:   3'- aCGAGUGUcUGUCUaaaaaGUAGGUC- -5'
28819 3' -45.8 NC_006146.1 + 102104 0.71 0.995702
Target:  5'- cGCUCACGGcCAGAgagaUCAugguguUCCAGa -3'
miRNA:   3'- aCGAGUGUCuGUCUaaaaAGU------AGGUC- -5'
28819 3' -45.8 NC_006146.1 + 4721 0.73 0.984397
Target:  5'- gGCUCAgAGACGGug--UUCcgCCAGu -3'
miRNA:   3'- aCGAGUgUCUGUCuaaaAAGuaGGUC- -5'
28819 3' -45.8 NC_006146.1 + 114052 0.79 0.842909
Target:  5'- cGC-CACAGACAGGg----CAUCCAGg -3'
miRNA:   3'- aCGaGUGUCUGUCUaaaaaGUAGGUC- -5'
28819 3' -45.8 NC_006146.1 + 84249 1.12 0.020364
Target:  5'- gUGCUCACAGACAGAUUUUUCAUCCAGg -3'
miRNA:   3'- -ACGAGUGUCUGUCUAAAAAGUAGGUC- -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.