miRNA display CGI


Results 1 - 20 of 87 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
1646 3' -65.5 NC_001347.2 + 169118 0.66 0.642021
Target:  5'- aCGGCcuCGGCcGCGCGCGC-CGCGcugcaguggcuGGAc -3'
miRNA:   3'- -GCCGc-GCUGcCGCGCGCGuGCGC-----------CCU- -5'
1646 3' -65.5 NC_001347.2 + 88679 0.66 0.632754
Target:  5'- uGGCGC--CGGCGCGC-CcUGCuGGGAc -3'
miRNA:   3'- gCCGCGcuGCCGCGCGcGuGCG-CCCU- -5'
1646 3' -65.5 NC_001347.2 + 15635 0.66 0.623486
Target:  5'- -cGCGCGAgGGCGCG-Ga--GCGGGu -3'
miRNA:   3'- gcCGCGCUgCCGCGCgCgugCGCCCu -5'
1646 3' -65.5 NC_001347.2 + 139681 0.66 0.623486
Target:  5'- gCGGCGUuGCGGCaGUuuGUGCACGacagucagcaguCGGGAa -3'
miRNA:   3'- -GCCGCGcUGCCG-CG--CGCGUGC------------GCCCU- -5'
1646 3' -65.5 NC_001347.2 + 167216 0.66 0.623486
Target:  5'- aGGcCGCGcCGGC-CGCGC-CGCGagacGGAc -3'
miRNA:   3'- gCC-GCGCuGCCGcGCGCGuGCGC----CCU- -5'
1646 3' -65.5 NC_001347.2 + 170655 0.66 0.617928
Target:  5'- uGGCGaggaGACGGCGCGUuuuguggaauuggccGguUGCuGGGGc -3'
miRNA:   3'- gCCGCg---CUGCCGCGCG---------------CguGCG-CCCU- -5'
1646 3' -65.5 NC_001347.2 + 144578 0.66 0.614224
Target:  5'- aCGGUgGCGGCGGC-CGgGCuCGUGGaGGa -3'
miRNA:   3'- -GCCG-CGCUGCCGcGCgCGuGCGCC-CU- -5'
1646 3' -65.5 NC_001347.2 + 172255 0.66 0.614224
Target:  5'- uGGUGCGgaggccGCuGCGCGUGCcCGUGGuGAa -3'
miRNA:   3'- gCCGCGC------UGcCGCGCGCGuGCGCC-CU- -5'
1646 3' -65.5 NC_001347.2 + 142999 0.66 0.613299
Target:  5'- cCGGCgGCGGCGGUgguggaggagguuGCGcCGCAaGCGGcGGc -3'
miRNA:   3'- -GCCG-CGCUGCCG-------------CGC-GCGUgCGCC-CU- -5'
1646 3' -65.5 NC_001347.2 + 194455 0.66 0.604973
Target:  5'- -aGCGCuACGuGCGCGC-CACGgCGGGu -3'
miRNA:   3'- gcCGCGcUGC-CGCGCGcGUGC-GCCCu -5'
1646 3' -65.5 NC_001347.2 + 106238 0.66 0.604973
Target:  5'- aGGCgGCGGCGGUG-GCGUugGCa--- -3'
miRNA:   3'- gCCG-CGCUGCCGCgCGCGugCGcccu -5'
1646 3' -65.5 NC_001347.2 + 65853 0.66 0.604973
Target:  5'- aCGGCaGCGccaGCGGCuggccuucgGCaCGCugGCGGGc -3'
miRNA:   3'- -GCCG-CGC---UGCCG---------CGcGCGugCGCCCu -5'
1646 3' -65.5 NC_001347.2 + 126704 0.66 0.604973
Target:  5'- gCGGCGCccGAa-GCGCaGUGCACGCGcGAa -3'
miRNA:   3'- -GCCGCG--CUgcCGCG-CGCGUGCGCcCU- -5'
1646 3' -65.5 NC_001347.2 + 171826 0.66 0.604973
Target:  5'- uCGGCGUGGCuGGCuugcacacgGCGCuCAUGCGGu- -3'
miRNA:   3'- -GCCGCGCUG-CCG---------CGCGcGUGCGCCcu -5'
1646 3' -65.5 NC_001347.2 + 78608 0.66 0.59943
Target:  5'- gCGGCGCGAgGacuccaugagccuggGCGCGCGCgACGCc--- -3'
miRNA:   3'- -GCCGCGCUgC---------------CGCGCGCG-UGCGcccu -5'
1646 3' -65.5 NC_001347.2 + 87627 0.66 0.59943
Target:  5'- -aGCGaCGGCGGCuGCuguugcucgccagcgGCGCGCGUGcGGAu -3'
miRNA:   3'- gcCGC-GCUGCCG-CG---------------CGCGUGCGC-CCU- -5'
1646 3' -65.5 NC_001347.2 + 185470 0.66 0.595739
Target:  5'- -uGCGCcgGACGGCGuUGUgGCGCGCaGGGGc -3'
miRNA:   3'- gcCGCG--CUGCCGC-GCG-CGUGCG-CCCU- -5'
1646 3' -65.5 NC_001347.2 + 173076 0.66 0.595739
Target:  5'- uGuGCGCGAaagcgagaauuCGGC-CGUGCACGUGGa- -3'
miRNA:   3'- gC-CGCGCU-----------GCCGcGCGCGUGCGCCcu -5'
1646 3' -65.5 NC_001347.2 + 198088 0.66 0.592973
Target:  5'- gCGGuCGCGACGGUGacggucccgcucguCGCGUugaggauagucGCGCGGuGGc -3'
miRNA:   3'- -GCC-GCGCUGCCGC--------------GCGCG-----------UGCGCC-CU- -5'
1646 3' -65.5 NC_001347.2 + 191260 0.67 0.586527
Target:  5'- aCGGCGUaaugcgGGCaGGCGUGCGgCACGaaGGGc -3'
miRNA:   3'- -GCCGCG------CUG-CCGCGCGC-GUGCgcCCU- -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.