miRNA display CGI


Results 1 - 20 of 40 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
8216 3' -54.5 NC_001978.2 + 30230 0.66 0.693321
Target:  5'- aGAGcGCAACGGCaacGCCGggGCCGaCGAa- -3'
miRNA:   3'- gCUU-CGUUGCCG---CGGC--UGGUaGCUau -5'
8216 3' -54.5 NC_001978.2 + 22431 0.67 0.625681
Target:  5'- cCGGAGUucGACGGCGCUG-CCGUUc--- -3'
miRNA:   3'- -GCUUCG--UUGCCGCGGCuGGUAGcuau -5'
8216 3' -54.5 NC_001978.2 + 33560 0.66 0.637003
Target:  5'- uGucGCccuuguCGGCGCCGugACCGUCGGg- -3'
miRNA:   3'- gCuuCGuu----GCCGCGGC--UGGUAGCUau -5'
8216 3' -54.5 NC_001978.2 + 5620 0.66 0.637003
Target:  5'- aCGGAcGCGAcCGGCGCCaacgcuGCCuUCGGUGa -3'
miRNA:   3'- -GCUU-CGUU-GCCGCGGc-----UGGuAGCUAU- -5'
8216 3' -54.5 NC_001978.2 + 19851 0.66 0.648321
Target:  5'- uCGggGCGACgugcgcauuGGCGCCGuGCCGggggcCGAc- -3'
miRNA:   3'- -GCuuCGUUG---------CCGCGGC-UGGUa----GCUau -5'
8216 3' -54.5 NC_001978.2 + 17308 0.66 0.670898
Target:  5'- aGggGCGuugguCGGCGuauCCGGCgGUCGGc- -3'
miRNA:   3'- gCuuCGUu----GCCGC---GGCUGgUAGCUau -5'
8216 3' -54.5 NC_001978.2 + 9219 0.66 0.670898
Target:  5'- cCGGAGCGACGGCcgaCGACaauggCGAa- -3'
miRNA:   3'- -GCUUCGUUGCCGcg-GCUGgua--GCUau -5'
8216 3' -54.5 NC_001978.2 + 38497 0.66 0.670898
Target:  5'- aCGAAGaCAA-GGCgGCCGACCuucagcgcgaaGUCGAg- -3'
miRNA:   3'- -GCUUC-GUUgCCG-CGGCUGG-----------UAGCUau -5'
8216 3' -54.5 NC_001978.2 + 5537 0.66 0.670898
Target:  5'- cCGAcGC--CGGU-CCGGCCAUCGGUGa -3'
miRNA:   3'- -GCUuCGuuGCCGcGGCUGGUAGCUAU- -5'
8216 3' -54.5 NC_001978.2 + 19001 0.67 0.625681
Target:  5'- -uGGGCGACcGCGCUGACUAUCa--- -3'
miRNA:   3'- gcUUCGUUGcCGCGGCUGGUAGcuau -5'
8216 3' -54.5 NC_001978.2 + 2583 0.67 0.614364
Target:  5'- aCGAcGGCAAccCGGCGUuggguCGGCaCAUCGGUAa -3'
miRNA:   3'- -GCU-UCGUU--GCCGCG-----GCUG-GUAGCUAU- -5'
8216 3' -54.5 NC_001978.2 + 4385 0.68 0.547147
Target:  5'- uGggGCAGgGGCGCCGucGCUG-CGAc- -3'
miRNA:   3'- gCuuCGUUgCCGCGGC--UGGUaGCUau -5'
8216 3' -54.5 NC_001978.2 + 19525 0.76 0.195452
Target:  5'- aCGGAGCugacCGGCGCCGACCAcaUCa--- -3'
miRNA:   3'- -GCUUCGuu--GCCGCGGCUGGU--AGcuau -5'
8216 3' -54.5 NC_001978.2 + 39297 0.75 0.218052
Target:  5'- aGAAGCcgGACGGCacGCCGACCA-CGAa- -3'
miRNA:   3'- gCUUCG--UUGCCG--CGGCUGGUaGCUau -5'
8216 3' -54.5 NC_001978.2 + 14089 0.7 0.431448
Target:  5'- uGAAGCGGCGGCuuGCUG-CgGUCGAg- -3'
miRNA:   3'- gCUUCGUUGCCG--CGGCuGgUAGCUau -5'
8216 3' -54.5 NC_001978.2 + 15943 0.69 0.461671
Target:  5'- aCGGGcGCGACgGGCGCCGAC--UCGAc- -3'
miRNA:   3'- -GCUU-CGUUG-CCGCGGCUGguAGCUau -5'
8216 3' -54.5 NC_001978.2 + 24972 0.69 0.461671
Target:  5'- gCGAAGacgcuugccgaAugGGCGCUGACCuUCGGUc -3'
miRNA:   3'- -GCUUCg----------UugCCGCGGCUGGuAGCUAu -5'
8216 3' -54.5 NC_001978.2 + 36729 0.69 0.482427
Target:  5'- aCGGAGCcggaGACGGCGCCccaGGCCGUUc--- -3'
miRNA:   3'- -GCUUCG----UUGCCGCGG---CUGGUAGcuau -5'
8216 3' -54.5 NC_001978.2 + 9606 0.69 0.503623
Target:  5'- uGggGCugAACGGCGCCGagaugacgaagGCCAUUGc-- -3'
miRNA:   3'- gCuuCG--UUGCCGCGGC-----------UGGUAGCuau -5'
8216 3' -54.5 NC_001978.2 + 20375 0.68 0.514373
Target:  5'- gGAAGCcgaAGCGGCGaaGGCCgaaGUCGAg- -3'
miRNA:   3'- gCUUCG---UUGCCGCggCUGG---UAGCUau -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.