miRNA display CGI


Results 1 - 20 of 43 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
19116 3' -58.9 NC_004684.1 + 51578 0.66 0.604684
Target:  5'- cGCGCCaccgGGuCgCUCGGCGUGGugGu -3'
miRNA:   3'- uUGUGGga--CCuG-GAGCUGCGCCugCu -5'
19116 3' -58.9 NC_004684.1 + 30470 0.66 0.604684
Target:  5'- -cCACCC-GG-CCUCGAC-CGGuGCGAu -3'
miRNA:   3'- uuGUGGGaCCuGGAGCUGcGCC-UGCU- -5'
19116 3' -58.9 NC_004684.1 + 6742 0.66 0.594134
Target:  5'- cGACAUCCUGGcaccugcccCCUCGacccuGCGCauGGGCGAc -3'
miRNA:   3'- -UUGUGGGACCu--------GGAGC-----UGCG--CCUGCU- -5'
19116 3' -58.9 NC_004684.1 + 28897 0.66 0.594134
Target:  5'- cGCGCCgUGGcgACCgccgcugaUCGAC-CGGACGAc -3'
miRNA:   3'- uUGUGGgACC--UGG--------AGCUGcGCCUGCU- -5'
19116 3' -58.9 NC_004684.1 + 27668 0.66 0.594134
Target:  5'- gGACACCCuggUGGACaaguUCGACaGCgaGGugGAc -3'
miRNA:   3'- -UUGUGGG---ACCUGg---AGCUG-CG--CCugCU- -5'
19116 3' -58.9 NC_004684.1 + 36186 0.66 0.583615
Target:  5'- cGACGCgCUGGcACCUCaGcCGUGGAUGc -3'
miRNA:   3'- -UUGUGgGACC-UGGAG-CuGCGCCUGCu -5'
19116 3' -58.9 NC_004684.1 + 53808 0.66 0.57732
Target:  5'- --aGCCCUGGuccuggagaaugcccGCCUCGACGCaGuagcCGAu -3'
miRNA:   3'- uugUGGGACC---------------UGGAGCUGCGcCu---GCU- -5'
19116 3' -58.9 NC_004684.1 + 45139 0.67 0.541982
Target:  5'- uACACCCaGG-CCUCGGCGaagucGACGGc -3'
miRNA:   3'- uUGUGGGaCCuGGAGCUGCgc---CUGCU- -5'
19116 3' -58.9 NC_004684.1 + 18304 0.67 0.541982
Target:  5'- uGGCACCUgccGGuugGCggCGACGUGGGCGAc -3'
miRNA:   3'- -UUGUGGGa--CC---UGgaGCUGCGCCUGCU- -5'
19116 3' -58.9 NC_004684.1 + 51116 0.67 0.540953
Target:  5'- aAGCGCCgCgucGGGCC-CGGCGCgaacaccGGGCGAg -3'
miRNA:   3'- -UUGUGG-Ga--CCUGGaGCUGCG-------CCUGCU- -5'
19116 3' -58.9 NC_004684.1 + 2846 0.67 0.53172
Target:  5'- gAGCA-CCUGGACCacggguuccuggUCG-CGCcGGACGAc -3'
miRNA:   3'- -UUGUgGGACCUGG------------AGCuGCG-CCUGCU- -5'
19116 3' -58.9 NC_004684.1 + 54810 0.67 0.491438
Target:  5'- gAugACCCUGG-CUgaguUCGAC-CGGGCGGu -3'
miRNA:   3'- -UugUGGGACCuGG----AGCUGcGCCUGCU- -5'
19116 3' -58.9 NC_004684.1 + 1454 0.68 0.481585
Target:  5'- cACACUCUGGACCUCaACGguCGGGaGAc -3'
miRNA:   3'- uUGUGGGACCUGGAGcUGC--GCCUgCU- -5'
19116 3' -58.9 NC_004684.1 + 15272 0.68 0.472801
Target:  5'- cAACACCCUGGuggccaccagcCCgacguuuggcuggcgCGACGCGGugGc -3'
miRNA:   3'- -UUGUGGGACCu----------GGa--------------GCUGCGCCugCu -5'
19116 3' -58.9 NC_004684.1 + 28793 0.68 0.47086
Target:  5'- -cCACCCgguuccgagcUGGugCUCGACGgugugacCGGGCGGu -3'
miRNA:   3'- uuGUGGG----------ACCugGAGCUGC-------GCCUGCU- -5'
19116 3' -58.9 NC_004684.1 + 46434 0.68 0.462175
Target:  5'- cGGCGCaUCUGGAacagcagUUCGGCGCGGugGGc -3'
miRNA:   3'- -UUGUG-GGACCUg------GAGCUGCGCCugCU- -5'
19116 3' -58.9 NC_004684.1 + 56876 0.68 0.452626
Target:  5'- cGCACCCUGGccccgcACCUUGGCGaGGAgGc -3'
miRNA:   3'- uUGUGGGACC------UGGAGCUGCgCCUgCu -5'
19116 3' -58.9 NC_004684.1 + 37164 0.68 0.446948
Target:  5'- cGCGCCgaGGGCCacgucgcgccgagcaUCGACGCGcGCGGc -3'
miRNA:   3'- uUGUGGgaCCUGG---------------AGCUGCGCcUGCU- -5'
19116 3' -58.9 NC_004684.1 + 22418 0.68 0.437574
Target:  5'- cAGC-CCgCUGGGCCucaacgccaucgccgUCGGCGCGGcgGCGAu -3'
miRNA:   3'- -UUGuGG-GACCUGG---------------AGCUGCGCC--UGCU- -5'
19116 3' -58.9 NC_004684.1 + 66139 0.68 0.433855
Target:  5'- cAGCGCaUCUGGGCCggGGC-CGGGCGAc -3'
miRNA:   3'- -UUGUG-GGACCUGGagCUGcGCCUGCU- -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.