miRNA display CGI


Results 1 - 20 of 35 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
28174 3' -55.4 NC_005887.1 + 34633 0.66 0.661081
Target:  5'- uCGcCGUUCGCGUcgacgaGGCGcGCCGGCu---- -3'
miRNA:   3'- -GC-GCAAGUGCA------UCGU-CGGCCGcaucu -5'
28174 3' -55.4 NC_005887.1 + 40768 0.66 0.661081
Target:  5'- gCGCGccgCGCGccGCcgAGCCGGCGgucgAGGu -3'
miRNA:   3'- -GCGCaa-GUGCauCG--UCGGCCGCa---UCU- -5'
28174 3' -55.4 NC_005887.1 + 28405 0.66 0.661081
Target:  5'- aCGCG--CACGUcGCAGCCGaGCGc--- -3'
miRNA:   3'- -GCGCaaGUGCAuCGUCGGC-CGCaucu -5'
28174 3' -55.4 NC_005887.1 + 36976 0.66 0.64992
Target:  5'- gGCGUcgCGCGggucgAGCucGCCGGCGa--- -3'
miRNA:   3'- gCGCAa-GUGCa----UCGu-CGGCCGCaucu -5'
28174 3' -55.4 NC_005887.1 + 19475 0.66 0.64992
Target:  5'- aGCG--CGCGaggaucugaUAGCGGCCGGCGg--- -3'
miRNA:   3'- gCGCaaGUGC---------AUCGUCGGCCGCaucu -5'
28174 3' -55.4 NC_005887.1 + 15482 0.66 0.638742
Target:  5'- aCGCGUUCG---AGCuGGCCGcGCGUcAGAu -3'
miRNA:   3'- -GCGCAAGUgcaUCG-UCGGC-CGCA-UCU- -5'
28174 3' -55.4 NC_005887.1 + 20821 0.66 0.627558
Target:  5'- aGCGU---CGUgaauuucccGGCAGCCGGCGUc-- -3'
miRNA:   3'- gCGCAaguGCA---------UCGUCGGCCGCAucu -5'
28174 3' -55.4 NC_005887.1 + 19122 0.66 0.616378
Target:  5'- cCGcCGcUCGCGU-GCcGUCGGCGUGGc -3'
miRNA:   3'- -GC-GCaAGUGCAuCGuCGGCCGCAUCu -5'
28174 3' -55.4 NC_005887.1 + 1495 0.66 0.616378
Target:  5'- gGCGcucgCGCGgcGCGGCCGuGCGg--- -3'
miRNA:   3'- gCGCaa--GUGCauCGUCGGC-CGCaucu -5'
28174 3' -55.4 NC_005887.1 + 31001 0.66 0.616378
Target:  5'- uGCGUcucUCGCGUGGCG--CGGCGcAGGc -3'
miRNA:   3'- gCGCA---AGUGCAUCGUcgGCCGCaUCU- -5'
28174 3' -55.4 NC_005887.1 + 11375 0.66 0.609676
Target:  5'- gCGCGggCgucagcgcagccggaGCGcUGGCGGCCGGCGc--- -3'
miRNA:   3'- -GCGCaaG---------------UGC-AUCGUCGGCCGCaucu -5'
28174 3' -55.4 NC_005887.1 + 21058 0.66 0.605212
Target:  5'- --gGUUCGuCGUcGGC-GCCGGUGUGGGg -3'
miRNA:   3'- gcgCAAGU-GCA-UCGuCGGCCGCAUCU- -5'
28174 3' -55.4 NC_005887.1 + 37168 0.66 0.605212
Target:  5'- cCGC-UUCACGUucuccugcgucGGCucggcguccuucAGCuCGGCGUAGAu -3'
miRNA:   3'- -GCGcAAGUGCA-----------UCG------------UCG-GCCGCAUCU- -5'
28174 3' -55.4 NC_005887.1 + 40355 0.66 0.605212
Target:  5'- cCGCGcu--CGUAGUAGCCGGCc---- -3'
miRNA:   3'- -GCGCaaguGCAUCGUCGGCCGcaucu -5'
28174 3' -55.4 NC_005887.1 + 29020 0.67 0.582962
Target:  5'- gCGCGgcgagaucCGCGauGCGGCCGGCGUugccGAa -3'
miRNA:   3'- -GCGCaa------GUGCauCGUCGGCCGCAu---CU- -5'
28174 3' -55.4 NC_005887.1 + 17397 0.67 0.571895
Target:  5'- aCGCGcuggucgaUCACGUcGGCGGCaUGGCGaAGAa -3'
miRNA:   3'- -GCGCa-------AGUGCA-UCGUCG-GCCGCaUCU- -5'
28174 3' -55.4 NC_005887.1 + 18369 0.67 0.56088
Target:  5'- cCGCGUagACGgcGC-GCCGGCGc--- -3'
miRNA:   3'- -GCGCAagUGCauCGuCGGCCGCaucu -5'
28174 3' -55.4 NC_005887.1 + 41818 0.67 0.56088
Target:  5'- gCGCGg-CGCGcGGCGGCCGacGCGUucAGAu -3'
miRNA:   3'- -GCGCaaGUGCaUCGUCGGC--CGCA--UCU- -5'
28174 3' -55.4 NC_005887.1 + 29600 0.68 0.539034
Target:  5'- gGUGUucUCGCGUuGCAGCgCGGCGc--- -3'
miRNA:   3'- gCGCA--AGUGCAuCGUCG-GCCGCaucu -5'
28174 3' -55.4 NC_005887.1 + 41354 0.68 0.539034
Target:  5'- gCGCGcgCACG--GCGGCCGGCa---- -3'
miRNA:   3'- -GCGCaaGUGCauCGUCGGCCGcaucu -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.