miRNA display CGI


Results 1 - 20 of 21 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
23154 5' -60.5 NC_005178.1 + 9660 0.66 0.332415
Target:  5'- -cCGACGUcGCC-CCGUugacccaguUGCCcUGGGCg -3'
miRNA:   3'- caGUUGCA-CGGcGGCG---------ACGGcACCCG- -5'
23154 5' -60.5 NC_005178.1 + 26007 0.66 0.331613
Target:  5'- aGUUguuGCGUGCCGaCCaaacgauGUUGCCG-GGGUu -3'
miRNA:   3'- -CAGu--UGCACGGC-GG-------CGACGGCaCCCG- -5'
23154 5' -60.5 NC_005178.1 + 32608 0.66 0.330812
Target:  5'- aUCAGCGgGCgGCCGCUGgCGgccaguuccucGGCg -3'
miRNA:   3'- cAGUUGCaCGgCGGCGACgGCac---------CCG- -5'
23154 5' -60.5 NC_005178.1 + 13694 0.66 0.324453
Target:  5'- uGUCAGUG-GCCGCCuugauGCcGCCGUaGGCa -3'
miRNA:   3'- -CAGUUGCaCGGCGG-----CGaCGGCAcCCG- -5'
23154 5' -60.5 NC_005178.1 + 8734 0.66 0.324453
Target:  5'- --aGGCGaggGCuacuuCGCCcUUGCCGUGGGCg -3'
miRNA:   3'- cagUUGCa--CG-----GCGGcGACGGCACCCG- -5'
23154 5' -60.5 NC_005178.1 + 21099 0.67 0.301423
Target:  5'- gGUCGucCGUGUgCGCCGCcugaacGCCuucaaGUGGGCg -3'
miRNA:   3'- -CAGUu-GCACG-GCGGCGa-----CGG-----CACCCG- -5'
23154 5' -60.5 NC_005178.1 + 20983 0.67 0.294032
Target:  5'- aUCGuCGUGgCGaaCGCUaccggguucGCCGUGGGCg -3'
miRNA:   3'- cAGUuGCACgGCg-GCGA---------CGGCACCCG- -5'
23154 5' -60.5 NC_005178.1 + 34517 0.67 0.294032
Target:  5'- -aCAACGcgGUCGCUGC-GUCGcagGGGCg -3'
miRNA:   3'- caGUUGCa-CGGCGGCGaCGGCa--CCCG- -5'
23154 5' -60.5 NC_005178.1 + 33917 0.67 0.279675
Target:  5'- -gCGAUGcucgGCgGCCGgUGCCGgcuuuccgGGGCg -3'
miRNA:   3'- caGUUGCa---CGgCGGCgACGGCa-------CCCG- -5'
23154 5' -60.5 NC_005178.1 + 2125 0.67 0.278972
Target:  5'- gGUCAGCGUcaggcugucggugGCgGCCaGC-GCCG-GGGCc -3'
miRNA:   3'- -CAGUUGCA-------------CGgCGG-CGaCGGCaCCCG- -5'
23154 5' -60.5 NC_005178.1 + 26691 0.68 0.265881
Target:  5'- cUCGACGUG-CGCCcgaacaagugGCUGCCaGUugaccGGGCa -3'
miRNA:   3'- cAGUUGCACgGCGG----------CGACGG-CA-----CCCG- -5'
23154 5' -60.5 NC_005178.1 + 6318 0.68 0.259193
Target:  5'- cUCGACGaUGCUGUCGCcccaGuCCG-GGGCg -3'
miRNA:   3'- cAGUUGC-ACGGCGGCGa---C-GGCaCCCG- -5'
23154 5' -60.5 NC_005178.1 + 28294 0.68 0.233809
Target:  5'- -cCGGCGcUGCgGgaGCUGCCG-GGGCc -3'
miRNA:   3'- caGUUGC-ACGgCggCGACGGCaCCCG- -5'
23154 5' -60.5 NC_005178.1 + 27263 0.69 0.22018
Target:  5'- --gGACGUGCCGCCgaGCUGCucgacuaccaccagCGUGGccgGCa -3'
miRNA:   3'- cagUUGCACGGCGG--CGACG--------------GCACC---CG- -5'
23154 5' -60.5 NC_005178.1 + 11141 0.69 0.205052
Target:  5'- aUCAGCGcgggcGCCcugGCCGCcGCCcUGGGCu -3'
miRNA:   3'- cAGUUGCa----CGG---CGGCGaCGGcACCCG- -5'
23154 5' -60.5 NC_005178.1 + 17597 0.7 0.1843
Target:  5'- cGUUGACGgcgGCCGCUGUgcgucGCCGUGGu- -3'
miRNA:   3'- -CAGUUGCa--CGGCGGCGa----CGGCACCcg -5'
23154 5' -60.5 NC_005178.1 + 33690 0.7 0.17941
Target:  5'- gGUCAACGaUGCgCGgCaaGCUGCUGUGcGGCc -3'
miRNA:   3'- -CAGUUGC-ACG-GCgG--CGACGGCAC-CCG- -5'
23154 5' -60.5 NC_005178.1 + 26184 0.71 0.152426
Target:  5'- -gCGGCGgugGCCGCUGCgGgCGUGGcGCu -3'
miRNA:   3'- caGUUGCa--CGGCGGCGaCgGCACC-CG- -5'
23154 5' -60.5 NC_005178.1 + 12360 0.71 0.144282
Target:  5'- cGUCAACGUGCCGCCcagGCCacuaccGGCg -3'
miRNA:   3'- -CAGUUGCACGGCGGcgaCGGcac---CCG- -5'
23154 5' -60.5 NC_005178.1 + 9347 0.73 0.115545
Target:  5'- cUCAggaGCGUGCCGCCaGCaGUCGccaGGGCg -3'
miRNA:   3'- cAGU---UGCACGGCGG-CGaCGGCa--CCCG- -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.