miRNA display CGI


Results 1 - 20 of 31 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
23057 3' -60.4 NC_005178.1 + 30791 0.8 0.031868
Target:  5'- cGCCuGGCaGCGGUCGCgGCCUcGACCUg -3'
miRNA:   3'- -CGG-CCGcCGCCAGUGaCGGAaCUGGA- -5'
23057 3' -60.4 NC_005178.1 + 26312 0.66 0.36731
Target:  5'- cGCCauGGCGGC-GUCACUcGCCagGGCg- -3'
miRNA:   3'- -CGG--CCGCCGcCAGUGA-CGGaaCUGga -5'
23057 3' -60.4 NC_005178.1 + 12917 0.66 0.346199
Target:  5'- gGCCGGUGGUGGgcuggaggacguggCGCgccaggugcuggccgGCCUggUGACCc -3'
miRNA:   3'- -CGGCCGCCGCCa-------------GUGa--------------CGGA--ACUGGa -5'
23057 3' -60.4 NC_005178.1 + 35160 0.66 0.342082
Target:  5'- aGCCGGCuGGaggacGUCACUGUCggccaGGCCg -3'
miRNA:   3'- -CGGCCG-CCgc---CAGUGACGGaa---CUGGa -5'
23057 3' -60.4 NC_005178.1 + 3468 0.67 0.310431
Target:  5'- cCUGGUGGUGGUCGaUGCCcuacgUGACg- -3'
miRNA:   3'- cGGCCGCCGCCAGUgACGGa----ACUGga -5'
23057 3' -60.4 NC_005178.1 + 26089 0.67 0.295461
Target:  5'- cCCGaGgGGCGGaCGCUGCCgcagcgucGGCCa -3'
miRNA:   3'- cGGC-CgCCGCCaGUGACGGaa------CUGGa -5'
23057 3' -60.4 NC_005178.1 + 12086 0.68 0.274069
Target:  5'- cGCCuGGUGGaguGGUCGCguggcggGCCU-GGCCg -3'
miRNA:   3'- -CGG-CCGCCg--CCAGUGa------CGGAaCUGGa -5'
23057 3' -60.4 NC_005178.1 + 12414 0.68 0.2475
Target:  5'- cCCGGUGGCGGUgACUGa--UGACa- -3'
miRNA:   3'- cGGCCGCCGCCAgUGACggaACUGga -5'
23057 3' -60.4 NC_005178.1 + 8778 0.68 0.2475
Target:  5'- uGCgGGCGGCGGUCuuUGCa---ACCg -3'
miRNA:   3'- -CGgCCGCCGCCAGugACGgaacUGGa -5'
23057 3' -60.4 NC_005178.1 + 9679 0.69 0.235034
Target:  5'- aGCCGGCcgaGGCGGUCACcuUGCUccuacacaacgUUG-CCg -3'
miRNA:   3'- -CGGCCG---CCGCCAGUG--ACGG-----------AACuGGa -5'
23057 3' -60.4 NC_005178.1 + 26181 0.7 0.190357
Target:  5'- gGCgCGGCGGUGGcCGCUGCgggcgUGGCgCUg -3'
miRNA:   3'- -CG-GCCGCCGCCaGUGACGga---ACUG-GA- -5'
23057 3' -60.4 NC_005178.1 + 25898 0.71 0.153314
Target:  5'- uGCCGGCGcagaucaccgacGUGGUCACcaGCCU-GGCCa -3'
miRNA:   3'- -CGGCCGC------------CGCCAGUGa-CGGAaCUGGa -5'
23057 3' -60.4 NC_005178.1 + 28293 0.71 0.153314
Target:  5'- aCCGGCGcuGCGGgaGCUGCCggGGCCg -3'
miRNA:   3'- cGGCCGC--CGCCagUGACGGaaCUGGa -5'
23057 3' -60.4 NC_005178.1 + 12653 0.72 0.141193
Target:  5'- gGCuCGGCGGcCGGcgCGCUGgCgggUGGCCUg -3'
miRNA:   3'- -CG-GCCGCC-GCCa-GUGACgGa--ACUGGA- -5'
23057 3' -60.4 NC_005178.1 + 20945 0.68 0.260509
Target:  5'- gGUCGGUggucagGGCGGUCAUagcGCCUccuuacUGGCCUu -3'
miRNA:   3'- -CGGCCG------CCGCCAGUGa--CGGA------ACUGGA- -5'
23057 3' -60.4 NC_005178.1 + 25697 0.69 0.216757
Target:  5'- uGCCGGUcgaacucGGCGGUgGCUuucgccgcaGCCUcGGCCg -3'
miRNA:   3'- -CGGCCG-------CCGCCAgUGA---------CGGAaCUGGa -5'
23057 3' -60.4 NC_005178.1 + 35473 0.71 0.170941
Target:  5'- uGUCGGUGGCGGcCAgcGCCggGGCCa -3'
miRNA:   3'- -CGGCCGCCGCCaGUgaCGGaaCUGGa -5'
23057 3' -60.4 NC_005178.1 + 21074 0.74 0.090216
Target:  5'- gGCCGGUGGCGGU-GCUGCCgc--CCa -3'
miRNA:   3'- -CGGCCGCCGCCAgUGACGGaacuGGa -5'
23057 3' -60.4 NC_005178.1 + 20435 0.76 0.064014
Target:  5'- gGCCGGCuucagGGCGGUCAggGCCgcaaUGGCCUc -3'
miRNA:   3'- -CGGCCG-----CCGCCAGUgaCGGa---ACUGGA- -5'
23057 3' -60.4 NC_005178.1 + 27578 0.66 0.342082
Target:  5'- gGUCGGCGuCGGcCuucuuCUgcGCCUUGACCa -3'
miRNA:   3'- -CGGCCGCcGCCaGu----GA--CGGAACUGGa -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.