miRNA display CGI


Results 1 - 20 of 23 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
760 5' -52.4 NC_000852.3 + 235983 0.66 0.999006
Target:  5'- uGGAGAAgCCUGAGGUugagaaauagggACCGGu--GCa -3'
miRNA:   3'- -CCUCUUgGGGCUUCA------------UGGCCucuUGg -5'
760 5' -52.4 NC_000852.3 + 171190 0.66 0.998578
Target:  5'- uGGAGAaaugcGCCCUGAAuucGUACCuGAaacGACCa -3'
miRNA:   3'- -CCUCU-----UGGGGCUU---CAUGGcCUc--UUGG- -5'
760 5' -52.4 NC_000852.3 + 61612 0.67 0.998002
Target:  5'- aGGAGAugCCaCGAAggcuaaaagcGUAUUGGguugGGAACCc -3'
miRNA:   3'- -CCUCUugGG-GCUU----------CAUGGCC----UCUUGG- -5'
760 5' -52.4 NC_000852.3 + 69907 0.67 0.997242
Target:  5'- uGAGAAucUCCCGAAGgaggAUCaGGAGuACCu -3'
miRNA:   3'- cCUCUU--GGGGCUUCa---UGG-CCUCuUGG- -5'
760 5' -52.4 NC_000852.3 + 310124 0.68 0.996474
Target:  5'- cGGAGAACCCCuauaaauuaucgggaGAuuuuggaaacAGUACUcuAGAACCa -3'
miRNA:   3'- -CCUCUUGGGG---------------CU----------UCAUGGccUCUUGG- -5'
760 5' -52.4 NC_000852.3 + 37839 0.68 0.996256
Target:  5'- gGGAGGGCUCgGggGaggGCUcgggGGAGGGCUc -3'
miRNA:   3'- -CCUCUUGGGgCuuCa--UGG----CCUCUUGG- -5'
760 5' -52.4 NC_000852.3 + 37803 0.68 0.996256
Target:  5'- gGGAGGGCUCgGggGaggGCUcgggGGAGGGCUc -3'
miRNA:   3'- -CCUCUUGGGgCuuCa--UGG----CCUCUUGG- -5'
760 5' -52.4 NC_000852.3 + 181669 0.68 0.994998
Target:  5'- aGAGAAacuUCCCGggGg--CGGGGAACg -3'
miRNA:   3'- cCUCUU---GGGGCuuCaugGCCUCUUGg -5'
760 5' -52.4 NC_000852.3 + 144223 0.69 0.989064
Target:  5'- uGGAGGACCuuGuAGU-CCGGGuuguACCa -3'
miRNA:   3'- -CCUCUUGGggCuUCAuGGCCUcu--UGG- -5'
760 5' -52.4 NC_000852.3 + 110959 0.69 0.987687
Target:  5'- cGGGAAUUgC--AGUACCGGAGAACa -3'
miRNA:   3'- cCUCUUGGgGcuUCAUGGCCUCUUGg -5'
760 5' -52.4 NC_000852.3 + 210107 0.69 0.987687
Target:  5'- gGGAGAAgUUgcAGGUACCGGAGggUUg -3'
miRNA:   3'- -CCUCUUgGGgcUUCAUGGCCUCuuGG- -5'
760 5' -52.4 NC_000852.3 + 245490 0.7 0.984533
Target:  5'- cGGAGAACCaaugCCGAccaugccacaccAGUugCGGuGGAugCa -3'
miRNA:   3'- -CCUCUUGG----GGCU------------UCAugGCC-UCUugG- -5'
760 5' -52.4 NC_000852.3 + 146597 0.7 0.9808
Target:  5'- --uGAugUCCGaAAGUAcucCCGGAGAACUa -3'
miRNA:   3'- ccuCUugGGGC-UUCAU---GGCCUCUUGG- -5'
760 5' -52.4 NC_000852.3 + 142531 0.7 0.980393
Target:  5'- uGGAGGACCuuGuagucuggauuGUACCacGAGAACCc -3'
miRNA:   3'- -CCUCUUGGggCuu---------CAUGGc-CUCUUGG- -5'
760 5' -52.4 NC_000852.3 + 151467 0.72 0.959015
Target:  5'- -aAGAACCCCGcacuGGggaCGGAGAACUu -3'
miRNA:   3'- ccUCUUGGGGCu---UCaugGCCUCUUGG- -5'
760 5' -52.4 NC_000852.3 + 284972 0.73 0.938969
Target:  5'- uGAGAA-CCCGAGG-ACCcGAGGACCc -3'
miRNA:   3'- cCUCUUgGGGCUUCaUGGcCUCUUGG- -5'
760 5' -52.4 NC_000852.3 + 171727 0.75 0.87518
Target:  5'- cGucGGCCCCGAAGUcgcggcgACCGGAGGuuuCCa -3'
miRNA:   3'- cCucUUGGGGCUUCA-------UGGCCUCUu--GG- -5'
760 5' -52.4 NC_000852.3 + 208448 0.83 0.467205
Target:  5'- aGAGAACCCCGAAGUACCcGA-AACCc -3'
miRNA:   3'- cCUCUUGGGGCUUCAUGGcCUcUUGG- -5'
760 5' -52.4 NC_000852.3 + 208514 0.84 0.415303
Target:  5'- ------nCCCGAAGUACCGGAGAACCc -3'
miRNA:   3'- ccucuugGGGCUUCAUGGCCUCUUGG- -5'
760 5' -52.4 NC_000852.3 + 208610 0.99 0.06675
Target:  5'- aGAGAACCCCGAAGUACCaGAGAACCc -3'
miRNA:   3'- cCUCUUGGGGCUUCAUGGcCUCUUGG- -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.