miRNA display CGI


Results 1 - 20 of 46 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
28931 3' -63.9 NC_006146.1 + 20946 0.66 0.576658
Target:  5'- -gCCCCCaCUCCCacGCCuGGGCgccCCUc- -3'
miRNA:   3'- gaGGGGG-GAGGG--CGG-CCCGaa-GGAuu -5'
28931 3' -63.9 NC_006146.1 + 137699 0.66 0.576658
Target:  5'- gCUCCCCCuccggcCUCCCcCCGGGgUgcccgggCCUAc -3'
miRNA:   3'- -GAGGGGG------GAGGGcGGCCCgAa------GGAUu -5'
28931 3' -63.9 NC_006146.1 + 29322 0.66 0.557474
Target:  5'- cCUCCUCUCUCCCuccCCGaGGCcccggcUCCUGAg -3'
miRNA:   3'- -GAGGGGGGAGGGc--GGC-CCGa-----AGGAUU- -5'
28931 3' -63.9 NC_006146.1 + 17010 0.66 0.557474
Target:  5'- cCUCCUCUCUCCCuccCCGaGGCcccggcUCCUGAg -3'
miRNA:   3'- -GAGGGGGGAGGGc--GGC-CCGa-----AGGAUU- -5'
28931 3' -63.9 NC_006146.1 + 23166 0.66 0.557474
Target:  5'- cCUCCUCUCUCCCuccCCGaGGCcccggcUCCUGAg -3'
miRNA:   3'- -GAGGGGGGAGGGc--GGC-CCGa-----AGGAUU- -5'
28931 3' -63.9 NC_006146.1 + 13933 0.66 0.557474
Target:  5'- cCUCCUCUCUCCCuccCCGaGGCcccggcUCCUGAg -3'
miRNA:   3'- -GAGGGGGGAGGGc--GGC-CCGa-----AGGAUU- -5'
28931 3' -63.9 NC_006146.1 + 20088 0.66 0.557474
Target:  5'- cCUCCUCUCUCCCuccCCGaGGCcccggcUCCUGAg -3'
miRNA:   3'- -GAGGGGGGAGGGc--GGC-CCGa-----AGGAUU- -5'
28931 3' -63.9 NC_006146.1 + 26244 0.66 0.557474
Target:  5'- cCUCCUCUCUCCCuccCCGaGGCcccggcUCCUGAg -3'
miRNA:   3'- -GAGGGGGGAGGGc--GGC-CCGa-----AGGAUU- -5'
28931 3' -63.9 NC_006146.1 + 3615 0.66 0.538476
Target:  5'- -gCCggCCCCUCCCGCCGGcCaUCCc-- -3'
miRNA:   3'- gaGG--GGGGAGGGCGGCCcGaAGGauu -5'
28931 3' -63.9 NC_006146.1 + 102588 0.66 0.538476
Target:  5'- aUCCUCUCgcggCCCGaggaGGGCUUCCg-- -3'
miRNA:   3'- gAGGGGGGa---GGGCgg--CCCGAAGGauu -5'
28931 3' -63.9 NC_006146.1 + 819 0.66 0.538476
Target:  5'- -gCCggCCCCUCCCGCCGGcCaUCCc-- -3'
miRNA:   3'- gaGG--GGGGAGGGCGGCCcGaAGGauu -5'
28931 3' -63.9 NC_006146.1 + 2683 0.66 0.538476
Target:  5'- -gCCggCCCCUCCCGCCGGcCaUCCc-- -3'
miRNA:   3'- gaGG--GGGGAGGGCGGCCcGaAGGauu -5'
28931 3' -63.9 NC_006146.1 + 1751 0.66 0.538476
Target:  5'- -gCCggCCCCUCCCGCCGGcCaUCCc-- -3'
miRNA:   3'- gaGG--GGGGAGGGCGGCCcGaAGGauu -5'
28931 3' -63.9 NC_006146.1 + 159586 0.67 0.510416
Target:  5'- --gCCUUCUCCCGCCaacGGGCUUCa--- -3'
miRNA:   3'- gagGGGGGAGGGCGG---CCCGAAGgauu -5'
28931 3' -63.9 NC_006146.1 + 21316 0.67 0.510416
Target:  5'- -cCUCCUCUCCCGCCGcccCUUCCa-- -3'
miRNA:   3'- gaGGGGGGAGGGCGGCcc-GAAGGauu -5'
28931 3' -63.9 NC_006146.1 + 22605 0.67 0.510416
Target:  5'- uCUCCgCgCUCCUGCUGGaGCU-CCUGu -3'
miRNA:   3'- -GAGGgGgGAGGGCGGCC-CGAaGGAUu -5'
28931 3' -63.9 NC_006146.1 + 112445 0.67 0.510416
Target:  5'- --gCCCCCUCCgGCCGuGGUggUCaCUGGg -3'
miRNA:   3'- gagGGGGGAGGgCGGC-CCGa-AG-GAUU- -5'
28931 3' -63.9 NC_006146.1 + 33525 0.67 0.501196
Target:  5'- -gCCUCCCUCCCuagguuguGCCcGGCUUgCCUGg -3'
miRNA:   3'- gaGGGGGGAGGG--------CGGcCCGAA-GGAUu -5'
28931 3' -63.9 NC_006146.1 + 136748 0.67 0.501196
Target:  5'- -aCCCCCCaccCUCGCCGGGgcUCCg-- -3'
miRNA:   3'- gaGGGGGGa--GGGCGGCCCgaAGGauu -5'
28931 3' -63.9 NC_006146.1 + 4246 0.67 0.501196
Target:  5'- gCUCCCCCUUCCCGgCuCGcucuGGCgUCCg-- -3'
miRNA:   3'- -GAGGGGGGAGGGC-G-GC----CCGaAGGauu -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.