miRNA display CGI


Results 1 - 15 of 15 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
33048 3' -55.5 NC_007497.1 + 44044 0.66 0.670099
Target:  5'- cGCGGCCGGaaucaugcugACGGCGGucauuuuguGUUGGcGCgAGGa -3'
miRNA:   3'- -UGCUGGCU----------UGCCGCC---------UAACU-CGgUCU- -5'
33048 3' -55.5 NC_007497.1 + 42496 0.66 0.65902
Target:  5'- gACGGCUcGACGuGCGGAcgagcUUGGGCCu-- -3'
miRNA:   3'- -UGCUGGcUUGC-CGCCU-----AACUCGGucu -5'
33048 3' -55.5 NC_007497.1 + 4958 0.67 0.590165
Target:  5'- uGCGGCCGu-CGGCGGAggcaacagcagGAGUCguuGGAg -3'
miRNA:   3'- -UGCUGGCuuGCCGCCUaa---------CUCGG---UCU- -5'
33048 3' -55.5 NC_007497.1 + 32513 0.67 0.576928
Target:  5'- uGCGACCG-GCGGCcacgucacgGGGCCGGGc -3'
miRNA:   3'- -UGCUGGCuUGCCGccuaa----CUCGGUCU- -5'
33048 3' -55.5 NC_007497.1 + 28614 0.68 0.537676
Target:  5'- gGCGGCgGcGGCGGUGGAgaGucGCCGGAc -3'
miRNA:   3'- -UGCUGgC-UUGCCGCCUaaCu-CGGUCU- -5'
33048 3' -55.5 NC_007497.1 + 29908 0.68 0.526929
Target:  5'- uCGugCGGacaGCGGCGGGUgagUGuauuuGCCGGGg -3'
miRNA:   3'- uGCugGCU---UGCCGCCUA---ACu----CGGUCU- -5'
33048 3' -55.5 NC_007497.1 + 14961 0.68 0.516263
Target:  5'- cCGGCCGGAaaaGGCGccg-GAGCCGGu -3'
miRNA:   3'- uGCUGGCUUg--CCGCcuaaCUCGGUCu -5'
33048 3' -55.5 NC_007497.1 + 26435 0.69 0.484818
Target:  5'- aGCGAaaccaCGGACGGCGGug-GAGUCGu- -3'
miRNA:   3'- -UGCUg----GCUUGCCGCCuaaCUCGGUcu -5'
33048 3' -55.5 NC_007497.1 + 36850 0.69 0.47454
Target:  5'- uCGAuCCGcugcgcgaGGCGGCGGGcgucGAGCCGGAc -3'
miRNA:   3'- uGCU-GGC--------UUGCCGCCUaa--CUCGGUCU- -5'
33048 3' -55.5 NC_007497.1 + 36771 0.7 0.400323
Target:  5'- cCGGCuCGAcgcccgccgccucgcGCaGCGGAUcGAGCCAGAa -3'
miRNA:   3'- uGCUG-GCU---------------UGcCGCCUAaCUCGGUCU- -5'
33048 3' -55.5 NC_007497.1 + 35641 0.7 0.386569
Target:  5'- gUGGCCGAcgcgaucGCGcGCGGcaUGGGCCGGGg -3'
miRNA:   3'- uGCUGGCU-------UGC-CGCCuaACUCGGUCU- -5'
33048 3' -55.5 NC_007497.1 + 42603 0.71 0.369601
Target:  5'- -aGACCGAcuggcccugcGCgGGCGGAUUGAgcGCCAuGAg -3'
miRNA:   3'- ugCUGGCU----------UG-CCGCCUAACU--CGGU-CU- -5'
33048 3' -55.5 NC_007497.1 + 31821 0.71 0.360878
Target:  5'- uGCGGCCgGAGCGGCGGcgU---CCAGAa -3'
miRNA:   3'- -UGCUGG-CUUGCCGCCuaAcucGGUCU- -5'
33048 3' -55.5 NC_007497.1 + 33467 0.72 0.296348
Target:  5'- cGCGGgCGGGCGGCGcccGUUccGAGCCGGAa -3'
miRNA:   3'- -UGCUgGCUUGCCGCc--UAA--CUCGGUCU- -5'
33048 3' -55.5 NC_007497.1 + 16159 1.08 0.000882
Target:  5'- cACGACCGAACGGCGGAUUGAGCCAGAc -3'
miRNA:   3'- -UGCUGGCUUGCCGCCUAACUCGGUCU- -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.