miRNA display CGI


Results 1 - 20 of 29 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
12134 3' -58.5 NC_003309.1 + 9422 0.66 0.59185
Target:  5'- cCGGcCGuCGACGagaGACCGcgcauGCGGCGGu -3'
miRNA:   3'- cGCCaGUcGCUGUg--CUGGC-----UGCCGCC- -5'
12134 3' -58.5 NC_003309.1 + 10044 0.66 0.59185
Target:  5'- cGCGcGUCAGCGcCucgACGAgauuaCCGACGGUc- -3'
miRNA:   3'- -CGC-CAGUCGCuG---UGCU-----GGCUGCCGcc -5'
12134 3' -58.5 NC_003309.1 + 43563 0.66 0.575107
Target:  5'- aCGG-CGGCGacgugacgaucgucuGCACGcgcacGCCGuCGGCGGc -3'
miRNA:   3'- cGCCaGUCGC---------------UGUGC-----UGGCuGCCGCC- -5'
12134 3' -58.5 NC_003309.1 + 37947 0.66 0.570937
Target:  5'- cGCGGgauuuccucUCGGauaaGCGCGGCCuuuCGGCGGg -3'
miRNA:   3'- -CGCC---------AGUCgc--UGUGCUGGcu-GCCGCC- -5'
12134 3' -58.5 NC_003309.1 + 28197 0.66 0.570937
Target:  5'- --cGUCAGgGGCGCGAUaguuggugcacaCGACGGCa- -3'
miRNA:   3'- cgcCAGUCgCUGUGCUG------------GCUGCCGcc -5'
12134 3' -58.5 NC_003309.1 + 4618 0.66 0.602356
Target:  5'- uCGG-CAGCGAUGCGAUUGAuugcugccugUGGCGu -3'
miRNA:   3'- cGCCaGUCGCUGUGCUGGCU----------GCCGCc -5'
12134 3' -58.5 NC_003309.1 + 25761 0.67 0.519576
Target:  5'- cGCGG--AGCG-CAUGAUCGGCGaCGGa -3'
miRNA:   3'- -CGCCagUCGCuGUGCUGGCUGCcGCC- -5'
12134 3' -58.5 NC_003309.1 + 31537 0.67 0.519576
Target:  5'- gGCGGcaAGCGccagcucgaacuACGCcggccaGCCGACGGCGGc -3'
miRNA:   3'- -CGCCagUCGC------------UGUGc-----UGGCUGCCGCC- -5'
12134 3' -58.5 NC_003309.1 + 31476 0.67 0.53993
Target:  5'- cCGG-CGGCGAaaGCGGCC-ACGGCGc -3'
miRNA:   3'- cGCCaGUCGCUg-UGCUGGcUGCCGCc -5'
12134 3' -58.5 NC_003309.1 + 13114 0.67 0.560546
Target:  5'- -aGGUguGCGcGCACGcCCGGCuGCGa -3'
miRNA:   3'- cgCCAguCGC-UGUGCuGGCUGcCGCc -5'
12134 3' -58.5 NC_003309.1 + 20042 0.68 0.479836
Target:  5'- -aGGUCGGCG-UACGACuucgCGACGGUu- -3'
miRNA:   3'- cgCCAGUCGCuGUGCUG----GCUGCCGcc -5'
12134 3' -58.5 NC_003309.1 + 21643 0.68 0.470132
Target:  5'- uCGGUCAacguaagcGaCGACGCGACCGACGcuaugcuucccGCGu -3'
miRNA:   3'- cGCCAGU--------C-GCUGUGCUGGCUGC-----------CGCc -5'
12134 3' -58.5 NC_003309.1 + 14577 0.68 0.451031
Target:  5'- -aGGUaCAGCGACGCuugcguauGAagcccuguugcaCCGACGGCGa -3'
miRNA:   3'- cgCCA-GUCGCUGUG--------CU------------GGCUGCCGCc -5'
12134 3' -58.5 NC_003309.1 + 26951 0.69 0.432363
Target:  5'- --cGUCAGCG-CGCGaacaccGCCGACGGUGu -3'
miRNA:   3'- cgcCAGUCGCuGUGC------UGGCUGCCGCc -5'
12134 3' -58.5 NC_003309.1 + 15014 0.69 0.396424
Target:  5'- -aGGUCAGCGACGgcCGccccuUCGACGGCc- -3'
miRNA:   3'- cgCCAGUCGCUGU--GCu----GGCUGCCGcc -5'
12134 3' -58.5 NC_003309.1 + 22665 0.69 0.405228
Target:  5'- -aGG-CGGCGGCACcaucgcccacGCCGGCGGCGc -3'
miRNA:   3'- cgCCaGUCGCUGUGc---------UGGCUGCCGCc -5'
12134 3' -58.5 NC_003309.1 + 47491 0.69 0.405228
Target:  5'- gGCGGcgCAGCGACACcuucGCCGcCgGGCGu -3'
miRNA:   3'- -CGCCa-GUCGCUGUGc---UGGCuG-CCGCc -5'
12134 3' -58.5 NC_003309.1 + 22589 0.69 0.405228
Target:  5'- uCGGaCAGCGACGCGcaGCCGcucagugccaGCGGCa- -3'
miRNA:   3'- cGCCaGUCGCUGUGC--UGGC----------UGCCGcc -5'
12134 3' -58.5 NC_003309.1 + 11982 0.69 0.414154
Target:  5'- cGCGG-CAgccGCGGCGCGcGCCGcguCGGCGu -3'
miRNA:   3'- -CGCCaGU---CGCUGUGC-UGGCu--GCCGCc -5'
12134 3' -58.5 NC_003309.1 + 18711 0.69 0.4232
Target:  5'- cCGG-CuGCGGCGCGgauacggccGCCGAucCGGCGGc -3'
miRNA:   3'- cGCCaGuCGCUGUGC---------UGGCU--GCCGCC- -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.