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
17127 5' -54.7 NC_004333.2 + 30651 0.66 0.682386
Target:  5'- cGGCgUGCGCUGcUCGAGCa------- -3'
miRNA:   3'- aCCGaACGCGAC-AGCUCGcguuacag -5'
17127 5' -54.7 NC_004333.2 + 41438 0.66 0.671134
Target:  5'- aGuGCUUGCG--GUCGGGCGC-GUGcUCg -3'
miRNA:   3'- aC-CGAACGCgaCAGCUCGCGuUAC-AG- -5'
17127 5' -54.7 NC_004333.2 + 32951 0.66 0.648525
Target:  5'- aGGCgUGCGC-GUCGGGCaGCuuUG-Cg -3'
miRNA:   3'- aCCGaACGCGaCAGCUCG-CGuuACaG- -5'
17127 5' -54.7 NC_004333.2 + 6712 0.67 0.614518
Target:  5'- cGaGC--GCGCUGcCGAGCGCGAUcgaGUUg -3'
miRNA:   3'- aC-CGaaCGCGACaGCUCGCGUUA---CAG- -5'
17127 5' -54.7 NC_004333.2 + 13850 0.67 0.614518
Target:  5'- gGGCgc-CGC-GUCGAGCGCAuUGa- -3'
miRNA:   3'- aCCGaacGCGaCAGCUCGCGUuACag -5'
17127 5' -54.7 NC_004333.2 + 19621 0.67 0.591911
Target:  5'- cGGCgaGCGCgg-CGAGCGCGGc--- -3'
miRNA:   3'- aCCGaaCGCGacaGCUCGCGUUacag -5'
17127 5' -54.7 NC_004333.2 + 18188 0.67 0.591911
Target:  5'- gGGUgaUGCGCUcGUCGuGCGCGcgG-Ca -3'
miRNA:   3'- aCCGa-ACGCGA-CAGCuCGCGUuaCaG- -5'
17127 5' -54.7 NC_004333.2 + 17565 0.68 0.547199
Target:  5'- aGGUcgGUGCgGUCGAGUGCGAg--- -3'
miRNA:   3'- aCCGaaCGCGaCAGCUCGCGUUacag -5'
17127 5' -54.7 NC_004333.2 + 19439 0.68 0.53508
Target:  5'- ----cUGCGaguugaaCUGcUCGAGCGCGAUGUCg -3'
miRNA:   3'- accgaACGC-------GAC-AGCUCGCGUUACAG- -5'
17127 5' -54.7 NC_004333.2 + 31267 0.68 0.514377
Target:  5'- cGGCaaaugucgGCGUUGUCGAguacgGCGCGccGUCu -3'
miRNA:   3'- aCCGaa------CGCGACAGCU-----CGCGUuaCAG- -5'
17127 5' -54.7 NC_004333.2 + 45927 0.69 0.501471
Target:  5'- cUGGCcgcgUUGCGCgagaagcagcucGUCGAGCGgauGUGUCg -3'
miRNA:   3'- -ACCG----AACGCGa-----------CAGCUCGCgu-UACAG- -5'
17127 5' -54.7 NC_004333.2 + 32279 0.7 0.441296
Target:  5'- cGGaugGCGCggGUCG-GCGgCGAUGUCg -3'
miRNA:   3'- aCCgaaCGCGa-CAGCuCGC-GUUACAG- -5'
17127 5' -54.7 NC_004333.2 + 25644 0.71 0.365498
Target:  5'- gUGGCagGCGCUGUUu-GCGCAgcugaucgccaAUGUCg -3'
miRNA:   3'- -ACCGaaCGCGACAGcuCGCGU-----------UACAG- -5'
17127 5' -54.7 NC_004333.2 + 11517 0.72 0.348004
Target:  5'- aGGCgcugcgaagGCGUcaUGUCGAGCuuGAUGUCg -3'
miRNA:   3'- aCCGaa-------CGCG--ACAGCUCGcgUUACAG- -5'
17127 5' -54.7 NC_004333.2 + 48050 0.72 0.331116
Target:  5'- gUGGUUUGUGCUcau--GCGCGAUGUCg -3'
miRNA:   3'- -ACCGAACGCGAcagcuCGCGUUACAG- -5'
17127 5' -54.7 NC_004333.2 + 15518 0.72 0.322901
Target:  5'- cGGCg-GCGC-GUCaAGCGCGAUGUUa -3'
miRNA:   3'- aCCGaaCGCGaCAGcUCGCGUUACAG- -5'
17127 5' -54.7 NC_004333.2 + 11714 0.73 0.291571
Target:  5'- gGGCggcGUGCUGgCGuccuGCGCGAUGUCc -3'
miRNA:   3'- aCCGaa-CGCGACaGCu---CGCGUUACAG- -5'
17127 5' -54.7 NC_004333.2 + 11871 0.74 0.236142
Target:  5'- aUGGCcgcgucguacUUGCGCUcaaUCGAGCGCAAguaugGUCg -3'
miRNA:   3'- -ACCG----------AACGCGAc--AGCUCGCGUUa----CAG- -5'
17127 5' -54.7 NC_004333.2 + 9098 1.1 0.000621
Target:  5'- cUGGCUUGCGCUGUCGAGCGCAAUGUCg -3'
miRNA:   3'- -ACCGAACGCGACAGCUCGCGUUACAG- -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.