miRNA display CGI


Results 1 - 20 of 21 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
13256 5' -40.9 NC_003401.1 + 63767 0.66 1
Target:  5'- -aGACGCcgauGAGGGCACg--------- -3'
miRNA:   3'- gaUUGCGu---UUCCCGUGaauuaaaaag -5'
13256 5' -40.9 NC_003401.1 + 107227 0.66 1
Target:  5'- uUGAUGCGguugguugGGGGGCGCUgggAGUUg--- -3'
miRNA:   3'- gAUUGCGU--------UUCCCGUGAa--UUAAaaag -5'
13256 5' -40.9 NC_003401.1 + 113502 0.67 1
Target:  5'- uUAACuGCAAGGGGUugUUuAUUg--- -3'
miRNA:   3'- gAUUG-CGUUUCCCGugAAuUAAaaag -5'
13256 5' -40.9 NC_003401.1 + 72528 0.67 1
Target:  5'- -cAGCGCGGacGGGGCGCUc-------- -3'
miRNA:   3'- gaUUGCGUU--UCCCGUGAauuaaaaag -5'
13256 5' -40.9 NC_003401.1 + 14224 0.67 1
Target:  5'- -gGACGCccGGGGGCGCUaGAgggugUCg -3'
miRNA:   3'- gaUUGCGu-UUCCCGUGAaUUaaaa-AG- -5'
13256 5' -40.9 NC_003401.1 + 114561 0.69 1
Target:  5'- uUAACGCAAA--GC-CUUAAUUUUUCc -3'
miRNA:   3'- gAUUGCGUUUccCGuGAAUUAAAAAG- -5'
13256 5' -40.9 NC_003401.1 + 46746 0.66 1
Target:  5'- --cGCGgGGAGGGCAUcuuuuUUAAUgaagUUCg -3'
miRNA:   3'- gauUGCgUUUCCCGUG-----AAUUAaa--AAG- -5'
13256 5' -40.9 NC_003401.1 + 16233 0.66 1
Target:  5'- gUGACGCuccGGGGGCGCa--------- -3'
miRNA:   3'- gAUUGCGu--UUCCCGUGaauuaaaaag -5'
13256 5' -40.9 NC_003401.1 + 27610 0.67 1
Target:  5'- -cAGCGCGGGGGGCAg---------- -3'
miRNA:   3'- gaUUGCGUUUCCCGUgaauuaaaaag -5'
13256 5' -40.9 NC_003401.1 + 74039 0.67 1
Target:  5'- -cGGCGCAAAGGGguUggGGUcg-UCa -3'
miRNA:   3'- gaUUGCGUUUCCCguGaaUUAaaaAG- -5'
13256 5' -40.9 NC_003401.1 + 3049 0.68 1
Target:  5'- --cAC-CAGAGGGCGCUUc--UUUUCa -3'
miRNA:   3'- gauUGcGUUUCCCGUGAAuuaAAAAG- -5'
13256 5' -40.9 NC_003401.1 + 91485 0.68 1
Target:  5'- --cGCGCGA--GGCGuCUUGGUUUUUCc -3'
miRNA:   3'- gauUGCGUUucCCGU-GAAUUAAAAAG- -5'
13256 5' -40.9 NC_003401.1 + 57049 0.67 1
Target:  5'- aUGGCGCAuuGGGUAuuCUUGAUa---- -3'
miRNA:   3'- gAUUGCGUuuCCCGU--GAAUUAaaaag -5'
13256 5' -40.9 NC_003401.1 + 73513 0.7 0.999999
Target:  5'- --uGCGCAcuGGGGCGCgcggaUAAUUUUUa -3'
miRNA:   3'- gauUGCGUu-UCCCGUGa----AUUAAAAAg -5'
13256 5' -40.9 NC_003401.1 + 118687 0.69 0.999999
Target:  5'- -cAACGCGAGGGGcCGCUg-------- -3'
miRNA:   3'- gaUUGCGUUUCCC-GUGAauuaaaaag -5'
13256 5' -40.9 NC_003401.1 + 14047 0.71 0.999976
Target:  5'- uCUGACGCGcgccggaaaagcGAGGGCGCUgaccucugcugUUCg -3'
miRNA:   3'- -GAUUGCGU------------UUCCCGUGAauuaaa-----AAG- -5'
13256 5' -40.9 NC_003401.1 + 22264 0.72 0.99997
Target:  5'- -gGACGCAGAGGGUug--GAUUUUa- -3'
miRNA:   3'- gaUUGCGUUUCCCGugaaUUAAAAag -5'
13256 5' -40.9 NC_003401.1 + 121166 0.74 0.999601
Target:  5'- -gGGCGCGGGGGGCGCgccGGUUg--- -3'
miRNA:   3'- gaUUGCGUUUCCCGUGaa-UUAAaaag -5'
13256 5' -40.9 NC_003401.1 + 114501 0.74 0.99949
Target:  5'- aUAAUGCAAAaGGCACaUAAUUUUUUu -3'
miRNA:   3'- gAUUGCGUUUcCCGUGaAUUAAAAAG- -5'
13256 5' -40.9 NC_003401.1 + 70911 0.74 0.999354
Target:  5'- aUGGCuGCGAAGGGCGCUcuuuGUUUUg- -3'
miRNA:   3'- gAUUG-CGUUUCCCGUGAau--UAAAAag -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.