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
23143 3' -56.9 NC_005178.1 + 28752 0.66 0.545186
Target:  5'- -cUUGCCGaccugGUGCGGcUCAGCGGUu -3'
miRNA:   3'- gcAGCGGCca---UACGUCuAGUCGCCGc -5'
23143 3' -56.9 NC_005178.1 + 34524 0.66 0.534356
Target:  5'- gGUCGCUGcGUc-GCAGG--GGCGGCGc -3'
miRNA:   3'- gCAGCGGC-CAuaCGUCUagUCGCCGC- -5'
23143 3' -56.9 NC_005178.1 + 12166 0.66 0.512935
Target:  5'- aCGUC-CUGGa--GCAG-UCGGCGGCa -3'
miRNA:   3'- -GCAGcGGCCauaCGUCuAGUCGCCGc -5'
23143 3' -56.9 NC_005178.1 + 29956 0.66 0.502357
Target:  5'- -cUCGCgGGUcUGCGGGacguagaCGGCGGCa -3'
miRNA:   3'- gcAGCGgCCAuACGUCUa------GUCGCCGc -5'
23143 3' -56.9 NC_005178.1 + 33390 0.66 0.48771
Target:  5'- uGUUGCCGuucagcucugcgGUGCAGAggaAGCGGCc -3'
miRNA:   3'- gCAGCGGCca----------UACGUCUag-UCGCCGc -5'
23143 3' -56.9 NC_005178.1 + 9139 0.67 0.481495
Target:  5'- ---gGCCGGUAUGCugucgcuGGUCGGUGuGCc -3'
miRNA:   3'- gcagCGGCCAUACGu------CUAGUCGC-CGc -5'
23143 3' -56.9 NC_005178.1 + 5372 0.67 0.471222
Target:  5'- gCGUCcaGCuCGGUGcUGguGAggaugCGGCGGUGa -3'
miRNA:   3'- -GCAG--CG-GCCAU-ACguCUa----GUCGCCGC- -5'
23143 3' -56.9 NC_005178.1 + 29539 0.67 0.471222
Target:  5'- uCGaUGCCGGUGUcaGGGUCAGCcccGGCa -3'
miRNA:   3'- -GCaGCGGCCAUAcgUCUAGUCG---CCGc -5'
23143 3' -56.9 NC_005178.1 + 32925 0.67 0.461062
Target:  5'- gGUCGCCGGcAUGCcGAUggcugguuuacCGGgGGCu -3'
miRNA:   3'- gCAGCGGCCaUACGuCUA-----------GUCgCCGc -5'
23143 3' -56.9 NC_005178.1 + 2852 0.67 0.461062
Target:  5'- cCG-CGCCGGgucgaacggAUGCGGAaCGGCuGGCc -3'
miRNA:   3'- -GCaGCGGCCa--------UACGUCUaGUCG-CCGc -5'
23143 3' -56.9 NC_005178.1 + 33678 0.67 0.460053
Target:  5'- ---gGCCGGUGUuCGGGUCAacgaugcGCGGCa -3'
miRNA:   3'- gcagCGGCCAUAcGUCUAGU-------CGCCGc -5'
23143 3' -56.9 NC_005178.1 + 25895 0.67 0.441098
Target:  5'- aGUUGCCGGc--GCAGAUCAccgacGUGGUc -3'
miRNA:   3'- gCAGCGGCCauaCGUCUAGU-----CGCCGc -5'
23143 3' -56.9 NC_005178.1 + 2446 0.68 0.402694
Target:  5'- gGcCGCCaGcg-GCAGcUCGGCGGCGa -3'
miRNA:   3'- gCaGCGGcCauaCGUCuAGUCGCCGC- -5'
23143 3' -56.9 NC_005178.1 + 5503 0.69 0.366479
Target:  5'- gGUCGCCaGU-UGCgAGA-CGGUGGCGa -3'
miRNA:   3'- gCAGCGGcCAuACG-UCUaGUCGCCGC- -5'
23143 3' -56.9 NC_005178.1 + 6916 0.69 0.340827
Target:  5'- aGgCGCUGGUGcUGCcGAaaUCGGUGGCGg -3'
miRNA:   3'- gCaGCGGCCAU-ACGuCU--AGUCGCCGC- -5'
23143 3' -56.9 NC_005178.1 + 31898 0.7 0.324461
Target:  5'- aCGUCGCCGGgauggcgcUGCcGGUCAuCGGCc -3'
miRNA:   3'- -GCAGCGGCCau------ACGuCUAGUcGCCGc -5'
23143 3' -56.9 NC_005178.1 + 10277 0.7 0.301022
Target:  5'- --aCGCUGGUGguagucgaGCAGcUCGGCGGCa -3'
miRNA:   3'- gcaGCGGCCAUa-------CGUCuAGUCGCCGc -5'
23143 3' -56.9 NC_005178.1 + 25850 0.71 0.289066
Target:  5'- cCGUgGCCGGcauuUcgGCAGGUCAguaccgccaggccauGCGGCa -3'
miRNA:   3'- -GCAgCGGCC----AuaCGUCUAGU---------------CGCCGc -5'
23143 3' -56.9 NC_005178.1 + 30615 0.71 0.286136
Target:  5'- -cUCGCCGGcuuucgucuggcUGcUGCGGGccaccUCAGCGGCGa -3'
miRNA:   3'- gcAGCGGCC------------AU-ACGUCU-----AGUCGCCGC- -5'
23143 3' -56.9 NC_005178.1 + 25406 0.72 0.23672
Target:  5'- aCGUCG-CGGUAggcGCGGGUCugugcgucggcgcaGGCGGCGc -3'
miRNA:   3'- -GCAGCgGCCAUa--CGUCUAG--------------UCGCCGC- -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.