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
26257 3' -53.4 NC_005345.2 + 40830 0.7 0.582724
Target:  5'- gCCGGAAcGCUgcugcugCGCGCCg-CCAUGGc -3'
miRNA:   3'- gGGCUUUuCGAa------GCGCGGgaGGUACU- -5'
26257 3' -53.4 NC_005345.2 + 47612 0.71 0.506501
Target:  5'- gCCCGGuuGGCUcgaCGCGCCCgacacCCAaGAu -3'
miRNA:   3'- -GGGCUuuUCGAa--GCGCGGGa----GGUaCU- -5'
26257 3' -53.4 NC_005345.2 + 8281 0.72 0.464873
Target:  5'- gCCCGGucGAAGCggC-CGCCCUCCugcacGUGAu -3'
miRNA:   3'- -GGGCU--UUUCGaaGcGCGGGAGG-----UACU- -5'
26257 3' -53.4 NC_005345.2 + 48849 0.72 0.440767
Target:  5'- uUCCGggGGGCggggcggugcugCGUGCCCUaCCGUGu -3'
miRNA:   3'- -GGGCuuUUCGaa----------GCGCGGGA-GGUACu -5'
26257 3' -53.4 NC_005345.2 + 44378 0.72 0.434852
Target:  5'- gCCCGGAAAGgcaCGgGCCCaCCAUGAc -3'
miRNA:   3'- -GGGCUUUUCgaaGCgCGGGaGGUACU- -5'
26257 3' -53.4 NC_005345.2 + 5576 0.79 0.164249
Target:  5'- aCCGGcgugaacaAAAGCUUCGCGCUCgugCCGUGGg -3'
miRNA:   3'- gGGCU--------UUUCGAAGCGCGGGa--GGUACU- -5'
26257 3' -53.4 NC_005345.2 + 39015 0.66 0.789592
Target:  5'- cCCCGAAcugguGGCUgcuGCGCgUCUCCggGAa -3'
miRNA:   3'- -GGGCUUu----UCGAag-CGCG-GGAGGuaCU- -5'
26257 3' -53.4 NC_005345.2 + 5241 0.66 0.779523
Target:  5'- gCCGAcgcGCUgCGCGCCg-CCGUGGc -3'
miRNA:   3'- gGGCUuuuCGAaGCGCGGgaGGUACU- -5'
26257 3' -53.4 NC_005345.2 + 2766 0.66 0.769296
Target:  5'- uUCGGAcggcguGGCUgcUCGCcgccGCCCUUCGUGAg -3'
miRNA:   3'- gGGCUUu-----UCGA--AGCG----CGGGAGGUACU- -5'
26257 3' -53.4 NC_005345.2 + 44879 0.67 0.745238
Target:  5'- gCCCGAGcuGCccgcaccgccggugUUCGCcggcaGCCCgagCCGUGAg -3'
miRNA:   3'- -GGGCUUuuCG--------------AAGCG-----CGGGa--GGUACU- -5'
26257 3' -53.4 NC_005345.2 + 28290 0.69 0.616188
Target:  5'- gUCGAcAAGC-UCGCGCCCgCCAaGGg -3'
miRNA:   3'- gGGCUuUUCGaAGCGCGGGaGGUaCU- -5'
26257 3' -53.4 NC_005345.2 + 2913 0.66 0.789592
Target:  5'- aCCGGA----UUCGCGCCgCUCC-UGAc -3'
miRNA:   3'- gGGCUUuucgAAGCGCGG-GAGGuACU- -5'
26257 3' -53.4 NC_005345.2 + 11053 0.68 0.649781
Target:  5'- aCCCGA--AGUUUCuGCGUgCgUCCAUGGc -3'
miRNA:   3'- -GGGCUuuUCGAAG-CGCGgG-AGGUACU- -5'
26257 3' -53.4 NC_005345.2 + 21006 0.66 0.779523
Target:  5'- uCCCGAGGGGCuUUCGCauaccCCCUCg---- -3'
miRNA:   3'- -GGGCUUUUCG-AAGCGc----GGGAGguacu -5'
26257 3' -53.4 NC_005345.2 + 18406 0.66 0.809209
Target:  5'- aCCCucgccGGCcUCGCGCUCacggCCGUGAu -3'
miRNA:   3'- -GGGcuuu-UCGaAGCGCGGGa---GGUACU- -5'
26257 3' -53.4 NC_005345.2 + 13306 0.7 0.54964
Target:  5'- gCCCGAAccGAGCcacccgcCGCGCCCUCgCccGAc -3'
miRNA:   3'- -GGGCUU--UUCGaa-----GCGCGGGAG-GuaCU- -5'
26257 3' -53.4 NC_005345.2 + 47039 1.11 0.000953
Target:  5'- cCCCGAAAAGCUUCGCGCCCUCCAUGAg -3'
miRNA:   3'- -GGGCUUUUCGAAGCGCGGGAGGUACU- -5'
26257 3' -53.4 NC_005345.2 + 13604 0.78 0.204603
Target:  5'- gCCCGAAggcggcccccauGAGCUUCGCGCCggCCuUGAu -3'
miRNA:   3'- -GGGCUU------------UUCGAAGCGCGGgaGGuACU- -5'
26257 3' -53.4 NC_005345.2 + 37363 0.75 0.288286
Target:  5'- gCCCGAGcAGCUUUGCGgCCUCgcucuucuuCAUGAu -3'
miRNA:   3'- -GGGCUUuUCGAAGCGCgGGAG---------GUACU- -5'
26257 3' -53.4 NC_005345.2 + 40283 0.73 0.415473
Target:  5'- gUCCGGAGAGCgucaugcCGCGCCC-CCGUu- -3'
miRNA:   3'- -GGGCUUUUCGaa-----GCGCGGGaGGUAcu -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.