miRNA display CGI


Results 1 - 20 of 70 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
28067 5' -61.7 NC_005887.1 + 40030 0.71 0.171524
Target:  5'- uGGCG---CGGCUcgaGGCGGCCGgCCUACGc -3'
miRNA:   3'- -CCGCagaGCCGG---CUGCCGGC-GGAUGC- -5'
28067 5' -61.7 NC_005887.1 + 39649 0.69 0.216404
Target:  5'- cGCGgCUCGGCCGcuuGCCGCCcgUACGc -3'
miRNA:   3'- cCGCaGAGCCGGCugcCGGCGG--AUGC- -5'
28067 5' -61.7 NC_005887.1 + 39447 0.81 0.030179
Target:  5'- cGGCGUCguucgcggCGGCCGACGuguccgucGUCGCCUGCGc -3'
miRNA:   3'- -CCGCAGa-------GCCGGCUGC--------CGGCGGAUGC- -5'
28067 5' -61.7 NC_005887.1 + 38474 0.67 0.320675
Target:  5'- uGGCGUCgUauGCCgGGCuGCCGCCgUACa -3'
miRNA:   3'- -CCGCAG-AgcCGG-CUGcCGGCGG-AUGc -5'
28067 5' -61.7 NC_005887.1 + 37705 0.7 0.193821
Target:  5'- cGCGUCgcugagauccuugaUCGcGCCGGCGGCCaccggcGCCgcgGCGa -3'
miRNA:   3'- cCGCAG--------------AGC-CGGCUGCCGG------CGGa--UGC- -5'
28067 5' -61.7 NC_005887.1 + 36848 0.7 0.197352
Target:  5'- cGGUG-CUgCGGCCGgugcuGCGGCCggugcugcgccaucgGCCUGCGu -3'
miRNA:   3'- -CCGCaGA-GCCGGC-----UGCCGG---------------CGGAUGC- -5'
28067 5' -61.7 NC_005887.1 + 35143 0.67 0.298576
Target:  5'- cGGCGcCaCGGaCgGGCGGCCGUC-ACGc -3'
miRNA:   3'- -CCGCaGaGCC-GgCUGCCGGCGGaUGC- -5'
28067 5' -61.7 NC_005887.1 + 34243 0.66 0.336076
Target:  5'- cGGCGcCUCGGCgagcgCGGCGaGCUGCgcGCGc -3'
miRNA:   3'- -CCGCaGAGCCG-----GCUGC-CGGCGgaUGC- -5'
28067 5' -61.7 NC_005887.1 + 33931 0.67 0.301453
Target:  5'- cGCGUCgacCuGCCGACGGCgcucggcgagcacguCGCgUGCGg -3'
miRNA:   3'- cCGCAGa--GcCGGCUGCCG---------------GCGgAUGC- -5'
28067 5' -61.7 NC_005887.1 + 33483 0.67 0.315411
Target:  5'- cGGCGUCgcgaucucgacgggCGcGCCGGCGuucacaaGCUGCCcGCGa -3'
miRNA:   3'- -CCGCAGa-------------GC-CGGCUGC-------CGGCGGaUGC- -5'
28067 5' -61.7 NC_005887.1 + 33075 0.66 0.336076
Target:  5'- cGGCGUCgcCGuGCCGACcGCCGUgcACa -3'
miRNA:   3'- -CCGCAGa-GC-CGGCUGcCGGCGgaUGc -5'
28067 5' -61.7 NC_005887.1 + 32413 0.66 0.336076
Target:  5'- -uCGUCgacgUGGCCGGCGGCgaugugGCCgGCGg -3'
miRNA:   3'- ccGCAGa---GCCGGCUGCCGg-----CGGaUGC- -5'
28067 5' -61.7 NC_005887.1 + 32293 0.67 0.328309
Target:  5'- gGGCGaUCgUCGggccaGCCGGCGcGCCGCagUGCGu -3'
miRNA:   3'- -CCGC-AG-AGC-----CGGCUGC-CGGCGg-AUGC- -5'
28067 5' -61.7 NC_005887.1 + 31429 0.67 0.298576
Target:  5'- gGGCGUgagcaggcCGGCCGACGucaucugcGCCGgCUGCa -3'
miRNA:   3'- -CCGCAga------GCCGGCUGC--------CGGCgGAUGc -5'
28067 5' -61.7 NC_005887.1 + 31042 0.73 0.121368
Target:  5'- cGGCG-CUCGcuGCCGAgcCGGCCG-CUGCGa -3'
miRNA:   3'- -CCGCaGAGC--CGGCU--GCCGGCgGAUGC- -5'
28067 5' -61.7 NC_005887.1 + 30526 0.69 0.233465
Target:  5'- cGCGUaggCGGCCGuCGGCCGag-ACGc -3'
miRNA:   3'- cCGCAga-GCCGGCuGCCGGCggaUGC- -5'
28067 5' -61.7 NC_005887.1 + 30201 0.67 0.328309
Target:  5'- cGCGaucgucaccaaUCUgGcGCgCGACGGCgGCCUGCu -3'
miRNA:   3'- cCGC-----------AGAgC-CG-GCUGCCGgCGGAUGc -5'
28067 5' -61.7 NC_005887.1 + 29779 0.68 0.277675
Target:  5'- cGGCGgacaccaugCGcauGCCGGCGGCCGUCgACGc -3'
miRNA:   3'- -CCGCaga------GC---CGGCUGCCGGCGGaUGC- -5'
28067 5' -61.7 NC_005887.1 + 29141 0.76 0.06956
Target:  5'- uGGCGUCagcagcgacacacgUCGGCCGGCGGCCuGCUcgACc -3'
miRNA:   3'- -CCGCAG--------------AGCCGGCUGCCGG-CGGa-UGc -5'
28067 5' -61.7 NC_005887.1 + 29044 0.67 0.298576
Target:  5'- cGGCGUUgccgaacgccUGGCCGAucUGGUucagCGCCUGCGc -3'
miRNA:   3'- -CCGCAGa---------GCCGGCU--GCCG----GCGGAUGC- -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.