miRNA display CGI


Results 1 - 20 of 27 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
1351 3' -57.1 NC_001335.1 + 43733 0.66 0.625697
Target:  5'- gCGuGGuuGC-CG-CAGGGCACCGCg -3'
miRNA:   3'- aGCuCCucCGaGUaGUCUCGUGGCGg -5'
1351 3' -57.1 NC_001335.1 + 1512 0.66 0.625697
Target:  5'- cCGAGGAGGagaUCGUC----CACCGCa -3'
miRNA:   3'- aGCUCCUCCg--AGUAGucucGUGGCGg -5'
1351 3' -57.1 NC_001335.1 + 2127 0.66 0.614785
Target:  5'- gUCGAGGuGGCcccucgggcguUCGUCgcAGAGaACgGCCa -3'
miRNA:   3'- -AGCUCCuCCG-----------AGUAG--UCUCgUGgCGG- -5'
1351 3' -57.1 NC_001335.1 + 233 0.66 0.607156
Target:  5'- aUGAGG-GGCUaagagccccucucuaUAGAGCGCCGCa -3'
miRNA:   3'- aGCUCCuCCGAgua------------GUCUCGUGGCGg -5'
1351 3' -57.1 NC_001335.1 + 39562 0.66 0.603889
Target:  5'- cCGAGGGGGaaCGcCAGAcagauguccGCACCgGCCc -3'
miRNA:   3'- aGCUCCUCCgaGUaGUCU---------CGUGG-CGG- -5'
1351 3' -57.1 NC_001335.1 + 33803 0.66 0.597361
Target:  5'- gUCGAGGuagucggucuugccGGCcggCGUCAcGAaCGCCGCCa -3'
miRNA:   3'- -AGCUCCu-------------CCGa--GUAGU-CUcGUGGCGG- -5'
1351 3' -57.1 NC_001335.1 + 17376 0.66 0.582175
Target:  5'- aUCGGcGGcGcGCUCAUCGGcGCGCUGgCg -3'
miRNA:   3'- -AGCU-CCuC-CGAGUAGUCuCGUGGCgG- -5'
1351 3' -57.1 NC_001335.1 + 3137 0.66 0.582175
Target:  5'- cCGAGGGGuuUC--UAGAGCcGCUGCCg -3'
miRNA:   3'- aGCUCCUCcgAGuaGUCUCG-UGGCGG- -5'
1351 3' -57.1 NC_001335.1 + 35034 0.66 0.582175
Target:  5'- cUUGAaauAGGCgUCggCAGAGuCGCCGCCa -3'
miRNA:   3'- -AGCUcc-UCCG-AGuaGUCUC-GUGGCGG- -5'
1351 3' -57.1 NC_001335.1 + 47554 0.66 0.571375
Target:  5'- -gGAGGuaaGGGCgguggccaCAUCGGAGCugUgGCCa -3'
miRNA:   3'- agCUCC---UCCGa-------GUAGUCUCGugG-CGG- -5'
1351 3' -57.1 NC_001335.1 + 38051 0.67 0.560624
Target:  5'- aCGGuGGGGCUCAgCGGAGCccagaaguggaaGCCGUa -3'
miRNA:   3'- aGCUcCUCCGAGUaGUCUCG------------UGGCGg -5'
1351 3' -57.1 NC_001335.1 + 13058 0.67 0.560624
Target:  5'- aUCGAGuGGGGaaaCGUCAagaaGGcCACCGCCa -3'
miRNA:   3'- -AGCUC-CUCCga-GUAGUc---UC-GUGGCGG- -5'
1351 3' -57.1 NC_001335.1 + 2698 0.67 0.560624
Target:  5'- -aGAGcGGGUUCGUCGGAaCACC-CCg -3'
miRNA:   3'- agCUCcUCCGAGUAGUCUcGUGGcGG- -5'
1351 3' -57.1 NC_001335.1 + 24726 0.67 0.548863
Target:  5'- cCGAaccGGAGGCUCGUCcacgccaGGAuGUauGCCGCg -3'
miRNA:   3'- aGCU---CCUCCGAGUAG-------UCU-CG--UGGCGg -5'
1351 3' -57.1 NC_001335.1 + 11326 0.67 0.538239
Target:  5'- cUCGAGGAucGGgUCAccguucagcgggaUCGGcGGCuuACCGCCg -3'
miRNA:   3'- -AGCUCCU--CCgAGU-------------AGUC-UCG--UGGCGG- -5'
1351 3' -57.1 NC_001335.1 + 46599 0.67 0.528738
Target:  5'- cCGGGGAGuacaaGC-Cga-AGAGCACCGCUg -3'
miRNA:   3'- aGCUCCUC-----CGaGuagUCUCGUGGCGG- -5'
1351 3' -57.1 NC_001335.1 + 43687 0.67 0.518255
Target:  5'- aCGAGaAGGCUCuggCcGAGgGCCGCg -3'
miRNA:   3'- aGCUCcUCCGAGua-GuCUCgUGGCGg -5'
1351 3' -57.1 NC_001335.1 + 11428 0.69 0.44752
Target:  5'- cCGAGGAacGGCguggugcgGUCAGGGUugACUGCCa -3'
miRNA:   3'- aGCUCCU--CCGag------UAGUCUCG--UGGCGG- -5'
1351 3' -57.1 NC_001335.1 + 16409 0.69 0.438812
Target:  5'- gUCGAGGAgacagcGGCcuugaccgucuccagCGUCGGGGCAgCGUCg -3'
miRNA:   3'- -AGCUCCU------CCGa--------------GUAGUCUCGUgGCGG- -5'
1351 3' -57.1 NC_001335.1 + 30147 0.69 0.397687
Target:  5'- gUCGaAGGAGGCgu-UCuGGAGCACCaugcgcuugagagcGCCg -3'
miRNA:   3'- -AGC-UCCUCCGaguAG-UCUCGUGG--------------CGG- -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.