miRNA display CGI


Results 1 - 20 of 28 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
18454 3' -59.6 NC_004681.1 + 40000 1.06 0.000692
Target:  5'- cUUGAACCAGCGCCGCUUGGCCUGCCAg -3'
miRNA:   3'- -AACUUGGUCGCGGCGAACCGGACGGU- -5'
18454 3' -59.6 NC_004681.1 + 25287 0.77 0.09176
Target:  5'- ---uGCCAGCGCCGCcaggGGCCUGaCCGg -3'
miRNA:   3'- aacuUGGUCGCGGCGaa--CCGGAC-GGU- -5'
18454 3' -59.6 NC_004681.1 + 6280 0.76 0.11766
Target:  5'- -cGAACgAGgGCCGCgagaucaugGGCCUGCCGc -3'
miRNA:   3'- aaCUUGgUCgCGGCGaa-------CCGGACGGU- -5'
18454 3' -59.6 NC_004681.1 + 18482 0.74 0.150243
Target:  5'- ---cGCCgcGGcCGCCGCcUGGCCUGCCAu -3'
miRNA:   3'- aacuUGG--UC-GCGGCGaACCGGACGGU- -5'
18454 3' -59.6 NC_004681.1 + 52248 0.71 0.240725
Target:  5'- -aGGACCAccaccauguGCaGCUGCUUGGCC-GCCAc -3'
miRNA:   3'- aaCUUGGU---------CG-CGGCGAACCGGaCGGU- -5'
18454 3' -59.6 NC_004681.1 + 32326 0.7 0.308427
Target:  5'- -cGAgGCCGcGCuGCCGCUgcgaUGGCCUGCUc -3'
miRNA:   3'- aaCU-UGGU-CG-CGGCGA----ACCGGACGGu -5'
18454 3' -59.6 NC_004681.1 + 9100 0.69 0.315943
Target:  5'- ---cACCGGCGCCGCUggcucgGGCuCUGgCGu -3'
miRNA:   3'- aacuUGGUCGCGGCGAa-----CCG-GACgGU- -5'
18454 3' -59.6 NC_004681.1 + 39567 0.69 0.331388
Target:  5'- cUUGAGCCAGCGCacCGCggaGGUgUGUCGc -3'
miRNA:   3'- -AACUUGGUCGCG--GCGaa-CCGgACGGU- -5'
18454 3' -59.6 NC_004681.1 + 49696 0.69 0.355583
Target:  5'- -gGAAUCuGCGCCuuCUUGGCCcGCCu -3'
miRNA:   3'- aaCUUGGuCGCGGc-GAACCGGaCGGu -5'
18454 3' -59.6 NC_004681.1 + 28129 0.68 0.38973
Target:  5'- -aGcGCCAGCGCCGUc-GGUcuugCUGCCAc -3'
miRNA:   3'- aaCuUGGUCGCGGCGaaCCG----GACGGU- -5'
18454 3' -59.6 NC_004681.1 + 70061 0.68 0.40759
Target:  5'- -cGucuCCAGCGUCuCUcUGGCUUGCCAg -3'
miRNA:   3'- aaCuu-GGUCGCGGcGA-ACCGGACGGU- -5'
18454 3' -59.6 NC_004681.1 + 31241 0.68 0.40759
Target:  5'- -gGGACCGGCGCCGaguguUUGGCUacgGCa- -3'
miRNA:   3'- aaCUUGGUCGCGGCg----AACCGGa--CGgu -5'
18454 3' -59.6 NC_004681.1 + 74908 0.67 0.434377
Target:  5'- -aGGACCAGUGCuuccgcgagcuguCGCUUGaGCUUGCgGa -3'
miRNA:   3'- aaCUUGGUCGCG-------------GCGAAC-CGGACGgU- -5'
18454 3' -59.6 NC_004681.1 + 38865 0.67 0.444801
Target:  5'- aUGAGCCAGgaGUC-CUUGaGCuCUGCCAg -3'
miRNA:   3'- aACUUGGUCg-CGGcGAAC-CG-GACGGU- -5'
18454 3' -59.6 NC_004681.1 + 40247 0.67 0.444801
Target:  5'- -cGAucugCGGCGUCGC--GGCCUGCCu -3'
miRNA:   3'- aaCUug--GUCGCGGCGaaCCGGACGGu -5'
18454 3' -59.6 NC_004681.1 + 22192 0.67 0.454398
Target:  5'- gUGAugCGGCGCUGCaacUUGGCCacaggggauuccUGCg- -3'
miRNA:   3'- aACUugGUCGCGGCG---AACCGG------------ACGgu -5'
18454 3' -59.6 NC_004681.1 + 36773 0.67 0.464106
Target:  5'- -cGucuGCCAG-GCCGC-UGGCCcGCCc -3'
miRNA:   3'- aaCu--UGGUCgCGGCGaACCGGaCGGu -5'
18454 3' -59.6 NC_004681.1 + 54596 0.67 0.464106
Target:  5'- -gGGACCAGCu---CUUGGCCUGCUu -3'
miRNA:   3'- aaCUUGGUCGcggcGAACCGGACGGu -5'
18454 3' -59.6 NC_004681.1 + 16236 0.66 0.469982
Target:  5'- aUGGccGCCAGCGCCGCgaaGCCgauacccgacacaGCCGu -3'
miRNA:   3'- aACU--UGGUCGCGGCGaacCGGa------------CGGU- -5'
18454 3' -59.6 NC_004681.1 + 28930 0.66 0.473921
Target:  5'- -gGAGCCcGUGCCuGC---GCCUGCCAg -3'
miRNA:   3'- aaCUUGGuCGCGG-CGaacCGGACGGU- -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.