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
32198 3' -51.6 NC_007016.1 + 29319 0.66 0.98148
Target:  5'- aGAGGccGUCUcgagUUGGUGGCAacgggguaccCGUCCGg -3'
miRNA:   3'- aCUCU--UAGAaa--AACCGCCGU----------GCGGGU- -5'
32198 3' -51.6 NC_007016.1 + 117759 0.66 0.978985
Target:  5'- cGGGAagagccugcagacGUCUgg-UGGCGGCugaacgGCGCCg- -3'
miRNA:   3'- aCUCU-------------UAGAaaaACCGCCG------UGCGGgu -5'
32198 3' -51.6 NC_007016.1 + 31731 0.66 0.976766
Target:  5'- cUGGGuagCUUgucGGUGGUucgACGCCCAg -3'
miRNA:   3'- -ACUCuuaGAAaaaCCGCCG---UGCGGGU- -5'
32198 3' -51.6 NC_007016.1 + 22955 0.66 0.972403
Target:  5'- cGAGGGccgcgCUggUUGGCagauaauaugaaaccGGCGCGUCCAu -3'
miRNA:   3'- aCUCUUa----GAaaAACCG---------------CCGUGCGGGU- -5'
32198 3' -51.6 NC_007016.1 + 78565 0.67 0.968125
Target:  5'- aGAGGAUUgaugUUUUGGCcGCGCGUuaCCu -3'
miRNA:   3'- aCUCUUAGa---AAAACCGcCGUGCG--GGu -5'
32198 3' -51.6 NC_007016.1 + 28129 0.67 0.968125
Target:  5'- cUGAGcuacugCUuggcgUUUUGGgGGCACGCCg- -3'
miRNA:   3'- -ACUCuua---GA-----AAAACCgCCGUGCGGgu -5'
32198 3' -51.6 NC_007016.1 + 106783 0.67 0.968125
Target:  5'- gGAGGugccgCguugUUGGCGaGCACGCaCCGu -3'
miRNA:   3'- aCUCUua---Gaaa-AACCGC-CGUGCG-GGU- -5'
32198 3' -51.6 NC_007016.1 + 30620 0.67 0.964795
Target:  5'- gGAGggUCUggcUUUGGCGacgaGCuuGUCCGu -3'
miRNA:   3'- aCUCuuAGAa--AAACCGC----CGugCGGGU- -5'
32198 3' -51.6 NC_007016.1 + 12743 0.67 0.957418
Target:  5'- -aAGAGUCcgUUcGGgGGCAUGCUCAu -3'
miRNA:   3'- acUCUUAGaaAAaCCgCCGUGCGGGU- -5'
32198 3' -51.6 NC_007016.1 + 803 0.67 0.951667
Target:  5'- gGAGGAcCgccaugccgGGCGGCGgcCGCCCGg -3'
miRNA:   3'- aCUCUUaGaaaaa----CCGCCGU--GCGGGU- -5'
32198 3' -51.6 NC_007016.1 + 17636 0.68 0.94905
Target:  5'- --cGAGUCUgg-UGGacaaCGGCACGCCaCGg -3'
miRNA:   3'- acuCUUAGAaaaACC----GCCGUGCGG-GU- -5'
32198 3' -51.6 NC_007016.1 + 33849 0.68 0.946341
Target:  5'- gGAGcGUCUgguUUUUGGCGGUuguugcaugcuuuucACGCCa- -3'
miRNA:   3'- aCUCuUAGA---AAAACCGCCG---------------UGCGGgu -5'
32198 3' -51.6 NC_007016.1 + 128821 0.68 0.942583
Target:  5'- gGAGggUUgaauguagcucgUUUGGUGuGCAUGCCUAu -3'
miRNA:   3'- aCUCuuAGaa----------AAACCGC-CGUGCGGGU- -5'
32198 3' -51.6 NC_007016.1 + 122695 0.68 0.933517
Target:  5'- gGGGAaauugucauGUCUgcgaguucgGGCGGCacguACGCCCAc -3'
miRNA:   3'- aCUCU---------UAGAaaaa-----CCGCCG----UGCGGGU- -5'
32198 3' -51.6 NC_007016.1 + 14619 0.68 0.929213
Target:  5'- gGGGAGgcagccgCgccgcUUGGCGGCGCGgCCGg -3'
miRNA:   3'- aCUCUUa------Gaaa--AACCGCCGUGCgGGU- -5'
32198 3' -51.6 NC_007016.1 + 21638 0.68 0.923595
Target:  5'- cGAGGAUgUUUUgGGUGGuguaaaCugGCCCAu -3'
miRNA:   3'- aCUCUUAgAAAAaCCGCC------GugCGGGU- -5'
32198 3' -51.6 NC_007016.1 + 120360 0.69 0.898494
Target:  5'- cGuGGA-CUUUgcagUGGUGGuCACGCCCu -3'
miRNA:   3'- aCuCUUaGAAAa---ACCGCC-GUGCGGGu -5'
32198 3' -51.6 NC_007016.1 + 60100 0.8 0.350476
Target:  5'- cGGGGcgCUcaggaGGCGGCGCGCCCAg -3'
miRNA:   3'- aCUCUuaGAaaaa-CCGCCGUGCGGGU- -5'
32198 3' -51.6 NC_007016.1 + 104399 1.1 0.005037
Target:  5'- aUGAGAAUCUUUUUGGCGGCACGCCCAg -3'
miRNA:   3'- -ACUCUUAGAAAAACCGCCGUGCGGGU- -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.