miRNA display CGI


Results 1 - 16 of 16 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
8220 3' -52.7 NC_001978.2 + 29118 0.66 0.793934
Target:  5'- aGCGC-GCGGCaCGGGgcuuGUCAcuGUGUCc -3'
miRNA:   3'- gCGCGuUGCCG-GCUUac--CAGU--UACAG- -5'
8220 3' -52.7 NC_001978.2 + 6948 0.66 0.78371
Target:  5'- aGCGCuguACGcGCCGucAGUGGuuUCAGUGg- -3'
miRNA:   3'- gCGCGu--UGC-CGGC--UUACC--AGUUACag -5'
8220 3' -52.7 NC_001978.2 + 25800 0.66 0.780609
Target:  5'- uCGCGgAGCuGGCCGAA-GGUCugaagggcuuucagGUCa -3'
miRNA:   3'- -GCGCgUUG-CCGGCUUaCCAGuua-----------CAG- -5'
8220 3' -52.7 NC_001978.2 + 15876 0.66 0.773315
Target:  5'- aCGgGCAcguCGGCCGAcgGGgugcCcGUGUUg -3'
miRNA:   3'- -GCgCGUu--GCCGGCUuaCCa---GuUACAG- -5'
8220 3' -52.7 NC_001978.2 + 7134 0.67 0.71923
Target:  5'- cCGCGCuGACcGCCGGAacaUGGUCAacAUGg- -3'
miRNA:   3'- -GCGCG-UUGcCGGCUU---ACCAGU--UACag -5'
8220 3' -52.7 NC_001978.2 + 23962 0.67 0.718119
Target:  5'- aGCGCGACGGgcuuCCGGcgGGUacugccaCAGUGg- -3'
miRNA:   3'- gCGCGUUGCC----GGCUuaCCA-------GUUACag -5'
8220 3' -52.7 NC_001978.2 + 33257 0.67 0.708081
Target:  5'- gGCGCuACGGCgUGAagGUGGUCGAg--- -3'
miRNA:   3'- gCGCGuUGCCG-GCU--UACCAGUUacag -5'
8220 3' -52.7 NC_001978.2 + 31718 0.69 0.605592
Target:  5'- uCGCGCGACGcGCUGAacaaAUGGUUcgacgGAUGg- -3'
miRNA:   3'- -GCGCGUUGC-CGGCU----UACCAG-----UUACag -5'
8220 3' -52.7 NC_001978.2 + 1898 0.69 0.605592
Target:  5'- aGCGuCAGCGcGUCGAAUaGGUCGcUGUg -3'
miRNA:   3'- gCGC-GUUGC-CGGCUUA-CCAGUuACAg -5'
8220 3' -52.7 NC_001978.2 + 5216 0.69 0.594181
Target:  5'- aGCGCGACGGCaCGAA-GGcCGGUa-- -3'
miRNA:   3'- gCGCGUUGCCG-GCUUaCCaGUUAcag -5'
8220 3' -52.7 NC_001978.2 + 9853 0.7 0.560194
Target:  5'- aGCGUcucAACGGCCGAcgacgGGUCGAgcuUCa -3'
miRNA:   3'- gCGCG---UUGCCGGCUua---CCAGUUac-AG- -5'
8220 3' -52.7 NC_001978.2 + 1538 0.7 0.504902
Target:  5'- gGCGcCAACGGCCGAagGuGUCcugaGUCa -3'
miRNA:   3'- gCGC-GUUGCCGGCUuaC-CAGuua-CAG- -5'
8220 3' -52.7 NC_001978.2 + 40083 0.71 0.456208
Target:  5'- aCGCGCGcccccaccacgacuuAgGGCCGGucgGGUCAGcGUCg -3'
miRNA:   3'- -GCGCGU---------------UgCCGGCUua-CCAGUUaCAG- -5'
8220 3' -52.7 NC_001978.2 + 31308 0.73 0.374367
Target:  5'- gGCGcCGACGcGCUGAGUGGUgaCGGUGUg -3'
miRNA:   3'- gCGC-GUUGC-CGGCUUACCA--GUUACAg -5'
8220 3' -52.7 NC_001978.2 + 27140 0.74 0.306208
Target:  5'- gCGCGguGCGGUCGAGUGGUaugcgAAUGg- -3'
miRNA:   3'- -GCGCguUGCCGGCUUACCAg----UUACag -5'
8220 3' -52.7 NC_001978.2 + 38960 1.11 0.000843
Target:  5'- aCGCGCAACGGCCGAAUGGUCAAUGUCg -3'
miRNA:   3'- -GCGCGUUGCCGGCUUACCAGUUACAG- -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.