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 + 6594 0.67 0.358148
Target:  5'- -cCUGCCGuGGCUCagcgGCCGAgacgagaUUGCGGUUa -3'
miRNA:   3'- gcGACGGC-CCGAG----CGGCU-------AGCGCUAG- -5'
12398 3' -61 NC_003324.1 + 42974 0.66 0.428461
Target:  5'- cCGCcGCUGGG-UCGUucuCGGUCGCaGAUCc -3'
miRNA:   3'- -GCGaCGGCCCgAGCG---GCUAGCG-CUAG- -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 + 25968 0.66 0.453647
Target:  5'- -cCUGCaGGGCuuUCuugaaagccucaagGUCGAUCGCGAUCg -3'
miRNA:   3'- gcGACGgCCCG--AG--------------CGGCUAGCGCUAG- -5'
12398 3' -61 NC_003324.1 + 12037 0.66 0.456495
Target:  5'- uGCuUGCCGGGCagggCGCCGAcucuucUC-CGAa- -3'
miRNA:   3'- gCG-ACGGCCCGa---GCGGCU------AGcGCUag -5'
12398 3' -61 NC_003324.1 + 26555 0.71 0.22102
Target:  5'- gCGCUGCCGaGGUcgagcaauugaugUCGCCGAcaUUGCcGUCg -3'
miRNA:   3'- -GCGACGGC-CCG-------------AGCGGCU--AGCGcUAG- -5'
12398 3' -61 NC_003324.1 + 50096 0.67 0.384086
Target:  5'- aGCgGCCccaGcGCUUGCCGAUCuugugggcgGCGAUCa -3'
miRNA:   3'- gCGaCGGc--C-CGAGCGGCUAG---------CGCUAG- -5'
12398 3' -61 NC_003324.1 + 35392 0.73 0.146376
Target:  5'- aGCaGCCGGcGCaaucCGCCGG-CGCGAUCg -3'
miRNA:   3'- gCGaCGGCC-CGa---GCGGCUaGCGCUAG- -5'
12398 3' -61 NC_003324.1 + 35898 0.71 0.205328
Target:  5'- aGCUGCUGGGCaaGCUGGcUC-CGGUCa -3'
miRNA:   3'- gCGACGGCCCGagCGGCU-AGcGCUAG- -5'
12398 3' -61 NC_003324.1 + 35539 0.68 0.319709
Target:  5'- aCGCUcGCCGacaUCGCCGA-CGUGAUCc -3'
miRNA:   3'- -GCGA-CGGCccgAGCGGCUaGCGCUAG- -5'
12398 3' -61 NC_003324.1 + 57390 0.69 0.276968
Target:  5'- uGCUGgaGGGCUCGgCGGagGCGAg- -3'
miRNA:   3'- gCGACggCCCGAGCgGCUagCGCUag -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 + 54424 0.7 0.251088
Target:  5'- cCGCUGCCGGGcCUCgacugggucauaGCCGGcgGCGAg- -3'
miRNA:   3'- -GCGACGGCCC-GAG------------CGGCUagCGCUag -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 + 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 + 8121 0.68 0.35085
Target:  5'- uGCUgaaacucacccGCCGGGCagcugcgCGCuCGAcUGCGAUCa -3'
miRNA:   3'- gCGA-----------CGGCCCGa------GCG-GCUaGCGCUAG- -5'
12398 3' -61 NC_003324.1 + 26877 0.67 0.384086
Target:  5'- gGCUcaagggugacGCCGGGCUC-CauGUCGCGAUg -3'
miRNA:   3'- gCGA----------CGGCCCGAGcGgcUAGCGCUAg -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.