miRNA display CGI


Results 1 - 20 of 28 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
12398 3' -61 NC_003324.1 + 29261 0.72 0.175909
Target:  5'- uGCaucGCCGGGCUCGCgcuCGAUCgGCGGa- -3'
miRNA:   3'- gCGa--CGGCCCGAGCG---GCUAG-CGCUag -5'
12398 3' -61 NC_003324.1 + 21851 0.66 0.456495
Target:  5'- gCGCaGCCGGGCcuccUCGgCGGccuuggccuucuUCGgGGUCg -3'
miRNA:   3'- -GCGaCGGCCCG----AGCgGCU------------AGCgCUAG- -5'
12398 3' -61 NC_003324.1 + 30048 0.66 0.437694
Target:  5'- uGCcGCCGcccaucacGC-CGCCGGUCGCGAc- -3'
miRNA:   3'- gCGaCGGCc-------CGaGCGGCUAGCGCUag -5'
12398 3' -61 NC_003324.1 + 28636 0.66 0.437694
Target:  5'- uCGUUG-CGGGC-CGCCuuGUCGCGcGUCg -3'
miRNA:   3'- -GCGACgGCCCGaGCGGc-UAGCGC-UAG- -5'
12398 3' -61 NC_003324.1 + 43794 0.66 0.419344
Target:  5'- gGgUGCCGGGaaCGCCGGcaaggCGCGugaaAUCa -3'
miRNA:   3'- gCgACGGCCCgaGCGGCUa----GCGC----UAG- -5'
12398 3' -61 NC_003324.1 + 22459 0.66 0.410346
Target:  5'- aCGCaGCaUGGGCUCGUCGAgguagCGCa--- -3'
miRNA:   3'- -GCGaCG-GCCCGAGCGGCUa----GCGcuag -5'
12398 3' -61 NC_003324.1 + 55321 0.67 0.400588
Target:  5'- aGCUGCCacagcGGCucaaggaUCGCUGGaaCGCGAUCa -3'
miRNA:   3'- gCGACGGc----CCG-------AGCGGCUa-GCGCUAG- -5'
12398 3' -61 NC_003324.1 + 26877 0.67 0.384086
Target:  5'- gGCUcaagggugacGCCGGGCUC-CauGUCGCGAUg -3'
miRNA:   3'- gCGA----------CGGCCCGAGcGgcUAGCGCUAg -5'
12398 3' -61 NC_003324.1 + 14539 0.67 0.36721
Target:  5'- gGC-GCUGGcGCUCaagGCCGA-CGUGGUCa -3'
miRNA:   3'- gCGaCGGCC-CGAG---CGGCUaGCGCUAG- -5'
12398 3' -61 NC_003324.1 + 49106 0.67 0.358965
Target:  5'- uCGCUGCCGGuGacgcgaUCGCCaaGAUgGCGGg- -3'
miRNA:   3'- -GCGACGGCC-Cg-----AGCGG--CUAgCGCUag -5'
12398 3' -61 NC_003324.1 + 29849 0.7 0.238913
Target:  5'- aGCUGCUguGGGCUgUGCCG-UCGUGAcaUCa -3'
miRNA:   3'- gCGACGG--CCCGA-GCGGCuAGCGCU--AG- -5'
12398 3' -61 NC_003324.1 + 54424 0.7 0.251088
Target:  5'- cCGCUGCCGGGcCUCgacugggucauaGCCGGcgGCGAg- -3'
miRNA:   3'- -GCGACGGCCC-GAG------------CGGCUagCGCUag -5'
12398 3' -61 NC_003324.1 + 19007 0.68 0.319709
Target:  5'- gGCUGCaCGcGGCUgGCCucGAaCGCGAUg -3'
miRNA:   3'- gCGACG-GC-CCGAgCGG--CUaGCGCUAg -5'
12398 3' -61 NC_003324.1 + 1405 0.68 0.327296
Target:  5'- aCGgUGCUGGGCguucuucgccUCGUCGAgcagCGCGAc- -3'
miRNA:   3'- -GCgACGGCCCG----------AGCGGCUa---GCGCUag -5'
12398 3' -61 NC_003324.1 + 49390 0.68 0.342867
Target:  5'- aGCgacCCGGGCaaauacUCGAUCGCGAUCg -3'
miRNA:   3'- gCGac-GGCCCGagc---GGCUAGCGCUAG- -5'
12398 3' -61 NC_003324.1 + 8121 0.68 0.35085
Target:  5'- uGCUgaaacucacccGCCGGGCagcugcgCGCuCGAcUGCGAUCa -3'
miRNA:   3'- gCGA-----------CGGCCCGa------GCG-GCUaGCGCUAG- -5'
12398 3' -61 NC_003324.1 + 49492 1.09 0.000279
Target:  5'- cCGCUGCCGGGCUCGCCGAUCGCGAUCg -3'
miRNA:   3'- -GCGACGGCCCGAGCGGCUAGCGCUAG- -5'
12398 3' -61 NC_003324.1 + 25968 0.66 0.453647
Target:  5'- -cCUGCaGGGCuuUCuugaaagccucaagGUCGAUCGCGAUCg -3'
miRNA:   3'- gcGACGgCCCG--AG--------------CGGCUAGCGCUAG- -5'
12398 3' -61 NC_003324.1 + 14516 0.66 0.437694
Target:  5'- aCGCcgGCaUGGGCccagaGCCGggCGUGAUCc -3'
miRNA:   3'- -GCGa-CG-GCCCGag---CGGCuaGCGCUAG- -5'
12398 3' -61 NC_003324.1 + 42974 0.66 0.428461
Target:  5'- cCGCcGCUGGG-UCGUucuCGGUCGCaGAUCc -3'
miRNA:   3'- -GCGaCGGCCCgAGCG---GCUAGCG-CUAG- -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.