miRNA display CGI


Results 1 - 20 of 72 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
21205 3' -65.5 NC_004778.3 + 1510 0.7 0.277303
Target:  5'- --uGCCCcGCGgGGCGCUGCCgaggucGGCCAu -3'
miRNA:   3'- gguCGGGcUGUgCCGCGGCGG------CCGGU- -5'
21205 3' -65.5 NC_004778.3 + 2447 0.72 0.183309
Target:  5'- -uGGCCCGAgUGCGGCacGCCGCUGGUUAu -3'
miRNA:   3'- ggUCGGGCU-GUGCCG--CGGCGGCCGGU- -5'
21205 3' -65.5 NC_004778.3 + 2522 0.69 0.30282
Target:  5'- gCCGaaguGCUCGACuuguccagcauGCGGCGCCGCCaGCa- -3'
miRNA:   3'- -GGU----CGGGCUG-----------UGCCGCGGCGGcCGgu -5'
21205 3' -65.5 NC_004778.3 + 5089 0.69 0.30282
Target:  5'- gCCGGUCCGGucuuCGCGGuCGCCGCCuuucuuacucGCCGg -3'
miRNA:   3'- -GGUCGGGCU----GUGCC-GCGGCGGc---------CGGU- -5'
21205 3' -65.5 NC_004778.3 + 8005 0.67 0.414163
Target:  5'- gCGGCgCCGACgGCGGCGaca-CGGCCGa -3'
miRNA:   3'- gGUCG-GGCUG-UGCCGCggcgGCCGGU- -5'
21205 3' -65.5 NC_004778.3 + 8110 0.67 0.3821
Target:  5'- aCCcGCuuaucgCCGACACGGCGCaGCUGcaaGCCAu -3'
miRNA:   3'- -GGuCG------GGCUGUGCCGCGgCGGC---CGGU- -5'
21205 3' -65.5 NC_004778.3 + 10637 0.7 0.283517
Target:  5'- aCGGCgCCG-CugGGCcucguaauuguGCgCGCCGGCCGc -3'
miRNA:   3'- gGUCG-GGCuGugCCG-----------CG-GCGGCCGGU- -5'
21205 3' -65.5 NC_004778.3 + 10676 0.72 0.187253
Target:  5'- gCCGcGCCCGaagcgugGCACGuguugaguguGCGCCGCCGcGCCGa -3'
miRNA:   3'- -GGU-CGGGC-------UGUGC----------CGCGGCGGC-CGGU- -5'
21205 3' -65.5 NC_004778.3 + 10683 0.67 0.414163
Target:  5'- gCCaAGCCCGACGaugaaGGCGCCa-CGGUa- -3'
miRNA:   3'- -GG-UCGGGCUGUg----CCGCGGcgGCCGgu -5'
21205 3' -65.5 NC_004778.3 + 11388 0.69 0.314199
Target:  5'- gCAGCuuGGCACgcaaGGCGCaaaugcacgcuuugCGCCGcGCCAc -3'
miRNA:   3'- gGUCGggCUGUG----CCGCG--------------GCGGC-CGGU- -5'
21205 3' -65.5 NC_004778.3 + 15079 0.66 0.456481
Target:  5'- gCCGGCCuCGccCGCGGCGC-GCagGGUCAa -3'
miRNA:   3'- -GGUCGG-GCu-GUGCCGCGgCGg-CCGGU- -5'
21205 3' -65.5 NC_004778.3 + 21493 0.72 0.211031
Target:  5'- aUCGGgCCGG-AUGGCGCCgccaccGCCGGCCGa -3'
miRNA:   3'- -GGUCgGGCUgUGCCGCGG------CGGCCGGU- -5'
21205 3' -65.5 NC_004778.3 + 21686 0.71 0.226201
Target:  5'- aCgAGCgCGACGCGGUGCUG-CGGuCCAa -3'
miRNA:   3'- -GgUCGgGCUGUGCCGCGGCgGCC-GGU- -5'
21205 3' -65.5 NC_004778.3 + 29311 0.68 0.369746
Target:  5'- cUCGGCCaauaaucuucgaaggUGGCGCGGCGCgCGCUGgggugcGCCAa -3'
miRNA:   3'- -GGUCGG---------------GCUGUGCCGCG-GCGGC------CGGU- -5'
21205 3' -65.5 NC_004778.3 + 32129 0.67 0.38132
Target:  5'- uUCAGCgCCuGCACGacggcgcuccaauGCGCCGC-GGCCAc -3'
miRNA:   3'- -GGUCG-GGcUGUGC-------------CGCGGCGgCCGGU- -5'
21205 3' -65.5 NC_004778.3 + 32790 0.67 0.430804
Target:  5'- aCuGCgCGaACAUGGaGUCGCUGGCCAu -3'
miRNA:   3'- gGuCGgGC-UGUGCCgCGGCGGCCGGU- -5'
21205 3' -65.5 NC_004778.3 + 33069 0.66 0.447829
Target:  5'- -gAGCCUGGCgcaacggugcaGCGGCccGCUGCCGcGCUAc -3'
miRNA:   3'- ggUCGGGCUG-----------UGCCG--CGGCGGC-CGGU- -5'
21205 3' -65.5 NC_004778.3 + 33661 0.66 0.447829
Target:  5'- gCAGCgCGGC-CGGCGCgcUGCCGcGCgGa -3'
miRNA:   3'- gGUCGgGCUGuGCCGCG--GCGGC-CGgU- -5'
21205 3' -65.5 NC_004778.3 + 33695 0.67 0.403562
Target:  5'- cCCGGCgCGGCuccaaaucuugaugGCGGgGCCGUcgCGGCUg -3'
miRNA:   3'- -GGUCGgGCUG--------------UGCCgCGGCG--GCCGGu -5'
21205 3' -65.5 NC_004778.3 + 34138 0.68 0.337205
Target:  5'- gCAGCgcgcguacgaCGACGCGGuCGCCGgCGGCg- -3'
miRNA:   3'- gGUCGg---------GCUGUGCC-GCGGCgGCCGgu -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.