miRNA display CGI


Results 1 - 20 of 30 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
30763 5' -59.1 NC_006552.1 + 4268 0.72 0.257152
Target:  5'- uUCCCGCuuuGGCGGUGGuUGCGGUagUGCCc -3'
miRNA:   3'- -GGGGUG---CCGCCGCC-GCGUUAcaACGG- -5'
30763 5' -59.1 NC_006552.1 + 4802 0.69 0.391998
Target:  5'- cCCCCACcuGCGGCgGGgGCGAUGc-GCa -3'
miRNA:   3'- -GGGGUGc-CGCCG-CCgCGUUACaaCGg -5'
30763 5' -59.1 NC_006552.1 + 5015 0.68 0.474683
Target:  5'- aCUUCAgguUGGCGGUGGCGUccUGguacaggUGCCg -3'
miRNA:   3'- -GGGGU---GCCGCCGCCGCGuuACa------ACGG- -5'
30763 5' -59.1 NC_006552.1 + 10745 0.66 0.572468
Target:  5'- gCCCAUGGCGaugcgcugcugcGCGGUGCucagggcaugcagauUGgcGCCg -3'
miRNA:   3'- gGGGUGCCGC------------CGCCGCGuu-------------ACaaCGG- -5'
30763 5' -59.1 NC_006552.1 + 11320 0.66 0.596484
Target:  5'- cUCCCugGauguCGGCGGCGuCGAUGgcuuCCu -3'
miRNA:   3'- -GGGGugCc---GCCGCCGC-GUUACaac-GG- -5'
30763 5' -59.1 NC_006552.1 + 12181 0.71 0.290357
Target:  5'- gUUCAUGGUGGCGGC-CAGUGccUUGUCg -3'
miRNA:   3'- gGGGUGCCGCCGCCGcGUUAC--AACGG- -5'
30763 5' -59.1 NC_006552.1 + 12890 0.71 0.304551
Target:  5'- aCCU-CGGCGGCGuGCGCcuuGAUGUcGUCg -3'
miRNA:   3'- gGGGuGCCGCCGC-CGCG---UUACAaCGG- -5'
30763 5' -59.1 NC_006552.1 + 14059 0.74 0.205279
Target:  5'- aCUCAuCGGCGGuUGGCGCccccuGUGUUGCg -3'
miRNA:   3'- gGGGU-GCCGCC-GCCGCGu----UACAACGg -5'
30763 5' -59.1 NC_006552.1 + 15748 0.71 0.326831
Target:  5'- gCCgGCauccGGCGGUGGCGCGAgcUUGUCc -3'
miRNA:   3'- gGGgUG----CCGCCGCCGCGUUacAACGG- -5'
30763 5' -59.1 NC_006552.1 + 19435 0.68 0.474683
Target:  5'- aCCCUACGG-GG-GGCGuCAGUaGUUGUa -3'
miRNA:   3'- -GGGGUGCCgCCgCCGC-GUUA-CAACGg -5'
30763 5' -59.1 NC_006552.1 + 21138 0.68 0.45553
Target:  5'- gCCCagguugacggGCGGCGGCgacgcgauaGGCGCAuccg-GCCg -3'
miRNA:   3'- gGGG----------UGCCGCCG---------CCGCGUuacaaCGG- -5'
30763 5' -59.1 NC_006552.1 + 22015 0.67 0.524213
Target:  5'- gCUgACGGUGGCGGCGUccucgaccagGAcacUGgcgGCCu -3'
miRNA:   3'- gGGgUGCCGCCGCCGCG----------UU---ACaa-CGG- -5'
30763 5' -59.1 NC_006552.1 + 22554 0.76 0.142655
Target:  5'- gCCCC-CaGCGGCGGCGCAGUccauccugGCCc -3'
miRNA:   3'- -GGGGuGcCGCCGCCGCGUUAcaa-----CGG- -5'
30763 5' -59.1 NC_006552.1 + 26520 0.67 0.524213
Target:  5'- gCCaCCAgCaGCGGCGGCGCcggGGUGU--CCa -3'
miRNA:   3'- -GG-GGU-GcCGCCGCCGCG---UUACAacGG- -5'
30763 5' -59.1 NC_006552.1 + 26711 0.67 0.514138
Target:  5'- gCCCAgGGCgccgaaGGCGucgccGUGCAGUGggcuUUGCCa -3'
miRNA:   3'- gGGGUgCCG------CCGC-----CGCGUUAC----AACGG- -5'
30763 5' -59.1 NC_006552.1 + 29302 1.13 0.000284
Target:  5'- gCCCCACGGCGGCGGCGCAAUGUUGCCg -3'
miRNA:   3'- -GGGGUGCCGCCGCCGCGUUACAACGG- -5'
30763 5' -59.1 NC_006552.1 + 31400 0.67 0.524213
Target:  5'- aCCguCGGCGGCGcCGcCAGUGgugGUCu -3'
miRNA:   3'- gGGguGCCGCCGCcGC-GUUACaa-CGG- -5'
30763 5' -59.1 NC_006552.1 + 32350 0.66 0.586019
Target:  5'- gCgCACGGCGGCuucGCGCAcugcGUcGUUgaGCCa -3'
miRNA:   3'- gGgGUGCCGCCGc--CGCGU----UA-CAA--CGG- -5'
30763 5' -59.1 NC_006552.1 + 33386 0.71 0.307453
Target:  5'- gCCCUucguAgGGCGGCGGCGCuuagacugcGCCg -3'
miRNA:   3'- -GGGG----UgCCGCCGCCGCGuuacaa---CGG- -5'
30763 5' -59.1 NC_006552.1 + 33748 0.68 0.474683
Target:  5'- gCCagCGCGGCGGCGGCauugcuguugaGCAGaacgccgGCCg -3'
miRNA:   3'- -GGg-GUGCCGCCGCCG-----------CGUUacaa---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.