miRNA display CGI


Results 1 - 20 of 22 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
18546 3' -58.2 NC_004682.1 + 38781 0.66 0.523914
Target:  5'- uGGUGUCGGCCagcgaCACgaccuuggUCGucUCGGCCAg -3'
miRNA:   3'- -CUACGGCCGG-----GUGa-------AGUcuAGCCGGU- -5'
18546 3' -58.2 NC_004682.1 + 27451 0.66 0.523914
Target:  5'- aGUGCCGaGCCagcCUUCaAGcUCGGCCc -3'
miRNA:   3'- cUACGGC-CGGgu-GAAG-UCuAGCCGGu -5'
18546 3' -58.2 NC_004682.1 + 44511 0.66 0.523914
Target:  5'- gGAgucCCGGaCCCAg--CGGGUCGGCCu -3'
miRNA:   3'- -CUac-GGCC-GGGUgaaGUCUAGCCGGu -5'
18546 3' -58.2 NC_004682.1 + 14680 0.66 0.503012
Target:  5'- --cGCCGaCCgGCUgggaCAGcAUCGGCCAc -3'
miRNA:   3'- cuaCGGCcGGgUGAa---GUC-UAGCCGGU- -5'
18546 3' -58.2 NC_004682.1 + 6894 0.66 0.489623
Target:  5'- --aGCUGGCCCGCgucgacaagguauggCAGA--GGCCAg -3'
miRNA:   3'- cuaCGGCCGGGUGaa-------------GUCUagCCGGU- -5'
18546 3' -58.2 NC_004682.1 + 5462 0.66 0.482482
Target:  5'- --aGUgGGCCgGCaUCGGcgCGGCCu -3'
miRNA:   3'- cuaCGgCCGGgUGaAGUCuaGCCGGu -5'
18546 3' -58.2 NC_004682.1 + 50706 0.66 0.482482
Target:  5'- uGUGCCGGCCCGUgcCGGcgGUCGaGCCc -3'
miRNA:   3'- cUACGGCCGGGUGaaGUC--UAGC-CGGu -5'
18546 3' -58.2 NC_004682.1 + 24927 0.67 0.452473
Target:  5'- cGGUGCUGGCCCccGCUUCGca-CaGCCAa -3'
miRNA:   3'- -CUACGGCCGGG--UGAAGUcuaGcCGGU- -5'
18546 3' -58.2 NC_004682.1 + 32216 0.67 0.442698
Target:  5'- -cUGCgCGGCCagcuuuCGCUUCAGcUCGGCg- -3'
miRNA:   3'- cuACG-GCCGG------GUGAAGUCuAGCCGgu -5'
18546 3' -58.2 NC_004682.1 + 38565 0.67 0.442698
Target:  5'- gGAUG-CGGCCCuca-CGGAUCGcGCCGa -3'
miRNA:   3'- -CUACgGCCGGGugaaGUCUAGC-CGGU- -5'
18546 3' -58.2 NC_004682.1 + 31138 0.67 0.433043
Target:  5'- --aGCCaGGCagaauCCACUUCagccAGAUCGGCUg -3'
miRNA:   3'- cuaCGG-CCG-----GGUGAAG----UCUAGCCGGu -5'
18546 3' -58.2 NC_004682.1 + 28696 0.68 0.414107
Target:  5'- cGAUGCC-GCCCACUcgCGGcggCGGCgGg -3'
miRNA:   3'- -CUACGGcCGGGUGAa-GUCua-GCCGgU- -5'
18546 3' -58.2 NC_004682.1 + 34869 0.68 0.404833
Target:  5'- --aGCCGGCCUug--CGGAUCuGCCGu -3'
miRNA:   3'- cuaCGGCCGGGugaaGUCUAGcCGGU- -5'
18546 3' -58.2 NC_004682.1 + 44564 0.68 0.369075
Target:  5'- aGAUGCCGcuuuCCCGCUcuUCGGGggUGGCCu -3'
miRNA:   3'- -CUACGGCc---GGGUGA--AGUCUa-GCCGGu -5'
18546 3' -58.2 NC_004682.1 + 38682 0.69 0.36048
Target:  5'- gGGUGCCGGUCCACUUCuu----GCCGc -3'
miRNA:   3'- -CUACGGCCGGGUGAAGucuagcCGGU- -5'
18546 3' -58.2 NC_004682.1 + 32926 0.69 0.327514
Target:  5'- aGGUGCCGGgaCGCUcCAGcUCGGUCAg -3'
miRNA:   3'- -CUACGGCCggGUGAaGUCuAGCCGGU- -5'
18546 3' -58.2 NC_004682.1 + 33154 0.69 0.31963
Target:  5'- cGGUGCCGGCCCAguagggauCUUCgAGGaCGGUgGa -3'
miRNA:   3'- -CUACGGCCGGGU--------GAAG-UCUaGCCGgU- -5'
18546 3' -58.2 NC_004682.1 + 16521 0.7 0.282351
Target:  5'- gGAUGCUGGCCgACUaCGGG-CGGCa- -3'
miRNA:   3'- -CUACGGCCGGgUGAaGUCUaGCCGgu -5'
18546 3' -58.2 NC_004682.1 + 36984 0.71 0.255075
Target:  5'- cGAUGCgCGGgCCugUgcCAGGUUGGCCu -3'
miRNA:   3'- -CUACG-GCCgGGugAa-GUCUAGCCGGu -5'
18546 3' -58.2 NC_004682.1 + 45649 0.71 0.254421
Target:  5'- --aGUCGGCCUGCUUCAGcccgucacgcaucGUCGGCa- -3'
miRNA:   3'- cuaCGGCCGGGUGAAGUC-------------UAGCCGgu -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.