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
7028 3' -51.9 NC_001875.2 + 31326 0.66 0.984673
Target:  5'- ---uGUGUUcGAGUUCAACGCgcaGCCc -3'
miRNA:   3'- ccuuCGCAA-CUCAAGUUGCGac-CGGc -5'
7028 3' -51.9 NC_001875.2 + 113600 0.66 0.984673
Target:  5'- --cGGCGUUcGAG-UCGGCGgCgGGCCGc -3'
miRNA:   3'- ccuUCGCAA-CUCaAGUUGC-GaCCGGC- -5'
7028 3' -51.9 NC_001875.2 + 5919 0.66 0.984488
Target:  5'- cGGcauGGCGUUGGGUagcgccgcgcaggUgGGCGC-GGCCu -3'
miRNA:   3'- -CCu--UCGCAACUCA-------------AgUUGCGaCCGGc -5'
7028 3' -51.9 NC_001875.2 + 121834 0.66 0.980641
Target:  5'- -uGAGCGcUGAagcgGUUCAGCGCaguuuuauacUGGCCu -3'
miRNA:   3'- ccUUCGCaACU----CAAGUUGCG----------ACCGGc -5'
7028 3' -51.9 NC_001875.2 + 112910 0.66 0.97835
Target:  5'- gGGAAGUGUUcGAGUcCAGCGUUucaaaguaGGCgGu -3'
miRNA:   3'- -CCUUCGCAA-CUCAaGUUGCGA--------CCGgC- -5'
7028 3' -51.9 NC_001875.2 + 75569 0.66 0.97835
Target:  5'- --cGGCGUUG-GUgaUAGCGCUGGCg- -3'
miRNA:   3'- ccuUCGCAACuCAa-GUUGCGACCGgc -5'
7028 3' -51.9 NC_001875.2 + 67862 0.66 0.975864
Target:  5'- cGGGGuGCGUcgccagauucUG-GUUCAGCGC-GGUCGg -3'
miRNA:   3'- -CCUU-CGCA----------ACuCAAGUUGCGaCCGGC- -5'
7028 3' -51.9 NC_001875.2 + 19124 0.67 0.970279
Target:  5'- cGAGGCcacgcucgUGGGccaAGCGCUGGCCa -3'
miRNA:   3'- cCUUCGca------ACUCaagUUGCGACCGGc -5'
7028 3' -51.9 NC_001875.2 + 30242 0.67 0.967163
Target:  5'- uGGucGCGUUGA------CGCUGGCCa -3'
miRNA:   3'- -CCuuCGCAACUcaaguuGCGACCGGc -5'
7028 3' -51.9 NC_001875.2 + 84157 0.67 0.963823
Target:  5'- ---cGCGUUGAGaaacgcgCGGCGCgccgcGGCCGc -3'
miRNA:   3'- ccuuCGCAACUCaa-----GUUGCGa----CCGGC- -5'
7028 3' -51.9 NC_001875.2 + 6988 0.67 0.960253
Target:  5'- -aAAGCGgccggugUGGGUgu-GCuGCUGGCCGg -3'
miRNA:   3'- ccUUCGCa------ACUCAaguUG-CGACCGGC- -5'
7028 3' -51.9 NC_001875.2 + 84337 0.68 0.956447
Target:  5'- cGGAGCGgcGAGUggCGgaGCgGCUGcGCCGg -3'
miRNA:   3'- cCUUCGCaaCUCAa-GU--UG-CGAC-CGGC- -5'
7028 3' -51.9 NC_001875.2 + 121959 0.68 0.948109
Target:  5'- cGGcAGCGUUGcAGcguaUUCAAaaaGCUGGCgGg -3'
miRNA:   3'- -CCuUCGCAAC-UC----AAGUUg--CGACCGgC- -5'
7028 3' -51.9 NC_001875.2 + 33445 0.68 0.943568
Target:  5'- -uGAGCGc---GUUCAGCGC-GGCCGg -3'
miRNA:   3'- ccUUCGCaacuCAAGUUGCGaCCGGC- -5'
7028 3' -51.9 NC_001875.2 + 75611 0.68 0.93373
Target:  5'- --cGGCGUUGGcgUCGGCGUUGGCg- -3'
miRNA:   3'- ccuUCGCAACUcaAGUUGCGACCGgc -5'
7028 3' -51.9 NC_001875.2 + 82041 0.69 0.910995
Target:  5'- uGGAcaucgcGGCGggcUGAGcggAAUGCUGGCCGg -3'
miRNA:   3'- -CCU------UCGCa--ACUCaagUUGCGACCGGC- -5'
7028 3' -51.9 NC_001875.2 + 117378 0.7 0.891291
Target:  5'- gGGAGGCGccGAGcu---UGCUGGCCGc -3'
miRNA:   3'- -CCUUCGCaaCUCaaguuGCGACCGGC- -5'
7028 3' -51.9 NC_001875.2 + 1052 0.75 0.660796
Target:  5'- --cAGCGUUGGGcgCAACGUUGGCg- -3'
miRNA:   3'- ccuUCGCAACUCaaGUUGCGACCGgc -5'
7028 3' -51.9 NC_001875.2 + 131448 1.13 0.003735
Target:  5'- cGGAAGCGUUGAGUUCAACGCUGGCCGa -3'
miRNA:   3'- -CCUUCGCAACUCAAGUUGCGACCGGC- -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.