miRNA display CGI


Results 1 - 20 of 31 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
11422 3' -55.7 NC_003085.1 + 40888 1.13 0.000434
Target:  5'- aCGACGGCGGCAUGCCACGGUUGUUGCg -3'
miRNA:   3'- -GCUGCCGCCGUACGGUGCCAACAACG- -5'
11422 3' -55.7 NC_003085.1 + 41387 0.73 0.299862
Target:  5'- uGACGGUGGUggGUgACGGccgUGUUGUc -3'
miRNA:   3'- gCUGCCGCCGuaCGgUGCCa--ACAACG- -5'
11422 3' -55.7 NC_003085.1 + 29430 0.73 0.299862
Target:  5'- gGGCGGCGGCaAUGCCGuccuccaGGcugaGUUGCg -3'
miRNA:   3'- gCUGCCGCCG-UACGGUg------CCaa--CAACG- -5'
11422 3' -55.7 NC_003085.1 + 5539 0.72 0.330929
Target:  5'- -aACGGCGGCG-GCCAucCGGUUGgcggacaUGCu -3'
miRNA:   3'- gcUGCCGCCGUaCGGU--GCCAACa------ACG- -5'
11422 3' -55.7 NC_003085.1 + 40577 0.72 0.330929
Target:  5'- uGGCGGUGcGCAUGCCagacGCGGUgacGUggaUGCc -3'
miRNA:   3'- gCUGCCGC-CGUACGG----UGCCAa--CA---ACG- -5'
11422 3' -55.7 NC_003085.1 + 9506 0.72 0.339057
Target:  5'- aCGAUGGCGGCGcGCgGCGGgucaucgGCu -3'
miRNA:   3'- -GCUGCCGCCGUaCGgUGCCaacaa--CG- -5'
11422 3' -55.7 NC_003085.1 + 24706 0.71 0.390818
Target:  5'- gGACGGCGGCAUcggcgGCUucGCGGg---UGCc -3'
miRNA:   3'- gCUGCCGCCGUA-----CGG--UGCCaacaACG- -5'
11422 3' -55.7 NC_003085.1 + 30008 0.7 0.418563
Target:  5'- aGugGcCGGUGUGCCACgGGUUGgUGUc -3'
miRNA:   3'- gCugCcGCCGUACGGUG-CCAACaACG- -5'
11422 3' -55.7 NC_003085.1 + 32138 0.7 0.437711
Target:  5'- aCGGgGGCGGCugGUGgCGCGGUggGUuacgGCg -3'
miRNA:   3'- -GCUgCCGCCG--UACgGUGCCAa-CAa---CG- -5'
11422 3' -55.7 NC_003085.1 + 12017 0.7 0.437711
Target:  5'- -uGCGGUGGCggGCgCGgGGUUGgcGCu -3'
miRNA:   3'- gcUGCCGCCGuaCG-GUgCCAACaaCG- -5'
11422 3' -55.7 NC_003085.1 + 40556 0.7 0.455366
Target:  5'- aCGACGGCacGGUgacgGCCGCGGUggaccccaagUGCa -3'
miRNA:   3'- -GCUGCCG--CCGua--CGGUGCCAaca-------ACG- -5'
11422 3' -55.7 NC_003085.1 + 18124 0.69 0.477454
Target:  5'- gGGCGGgaCGGCcgGCCugGGacGUcUGCu -3'
miRNA:   3'- gCUGCC--GCCGuaCGGugCCaaCA-ACG- -5'
11422 3' -55.7 NC_003085.1 + 35785 0.69 0.497985
Target:  5'- gCGACGGcCGGUguccuUGuCCAUGGg-GUUGCg -3'
miRNA:   3'- -GCUGCC-GCCGu----AC-GGUGCCaaCAACG- -5'
11422 3' -55.7 NC_003085.1 + 39897 0.69 0.508397
Target:  5'- uCGGCGGCGGCAgGCCAaacgccgcucuuUGGgaugggGUcGCu -3'
miRNA:   3'- -GCUGCCGCCGUaCGGU------------GCCaa----CAaCG- -5'
11422 3' -55.7 NC_003085.1 + 38195 0.68 0.5189
Target:  5'- gGGCuGGCGGCAacucggGCgGCGGUggcucgUGCa -3'
miRNA:   3'- gCUG-CCGCCGUa-----CGgUGCCAaca---ACG- -5'
11422 3' -55.7 NC_003085.1 + 11102 0.68 0.540155
Target:  5'- uCGcCGGCGGCAuucgUGCC-CaGGaaGUUGCg -3'
miRNA:   3'- -GCuGCCGCCGU----ACGGuG-CCaaCAACG- -5'
11422 3' -55.7 NC_003085.1 + 14921 0.68 0.540155
Target:  5'- cCGGCuGGUGGCGcucgcgGCCGCuG-UGUUGCu -3'
miRNA:   3'- -GCUG-CCGCCGUa-----CGGUGcCaACAACG- -5'
11422 3' -55.7 NC_003085.1 + 3872 0.68 0.550893
Target:  5'- uCGACGGCGcGCccgccgucUGUCGCGGUg---GCa -3'
miRNA:   3'- -GCUGCCGC-CGu-------ACGGUGCCAacaaCG- -5'
11422 3' -55.7 NC_003085.1 + 29474 0.68 0.550893
Target:  5'- aCGACGGCGGCAggGCCGuacuUGGccaGgaacUGCu -3'
miRNA:   3'- -GCUGCCGCCGUa-CGGU----GCCaa-Ca---ACG- -5'
11422 3' -55.7 NC_003085.1 + 17237 0.68 0.550893
Target:  5'- -cGCGGCGcccCGUGCuCugGGcggUGUUGCg -3'
miRNA:   3'- gcUGCCGCc--GUACG-GugCCa--ACAACG- -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.