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
26788 5' -56.4 NC_005808.1 + 35628 1.09 0.000587
Target:  5'- aGCCAUCGAGAAAGCCACCGAGCGGGUc -3'
miRNA:   3'- -CGGUAGCUCUUUCGGUGGCUCGCCCA- -5'
26788 5' -56.4 NC_005808.1 + 35055 0.73 0.2142
Target:  5'- cGCCGcagaUCGAGcacGCCGCCGAGCGcacGGUa -3'
miRNA:   3'- -CGGU----AGCUCuuuCGGUGGCUCGC---CCA- -5'
26788 5' -56.4 NC_005808.1 + 4436 0.73 0.219994
Target:  5'- cGCCAg-GGGGAAGCCGCC-AGCGGuGg -3'
miRNA:   3'- -CGGUagCUCUUUCGGUGGcUCGCC-Ca -5'
26788 5' -56.4 NC_005808.1 + 35834 0.73 0.219994
Target:  5'- gGCCAUCGAGcAGGUCGCCaaggaaaAGUGGGg -3'
miRNA:   3'- -CGGUAGCUCuUUCGGUGGc------UCGCCCa -5'
26788 5' -56.4 NC_005808.1 + 37543 0.71 0.290629
Target:  5'- uGCCG-CGgccugugcucaagcAGGAcGCCAUCGAGCGGGg -3'
miRNA:   3'- -CGGUaGC--------------UCUUuCGGUGGCUCGCCCa -5'
26788 5' -56.4 NC_005808.1 + 35163 0.71 0.32366
Target:  5'- cGCgCGUCGAGGAAGUguCCGGGCGc-- -3'
miRNA:   3'- -CG-GUAGCUCUUUCGguGGCUCGCcca -5'
26788 5' -56.4 NC_005808.1 + 33690 0.7 0.348316
Target:  5'- aGCCAUCGAGcgcGCCGCCGAuaGCGc-- -3'
miRNA:   3'- -CGGUAGCUCuuuCGGUGGCU--CGCcca -5'
26788 5' -56.4 NC_005808.1 + 15161 0.7 0.365483
Target:  5'- cGCCA--GGGccugcGGCCGCCGGGCGcGGUg -3'
miRNA:   3'- -CGGUagCUCuu---UCGGUGGCUCGC-CCA- -5'
26788 5' -56.4 NC_005808.1 + 14276 0.69 0.41089
Target:  5'- gGCCAUCGAGuccgaCGCCGAGCGc-- -3'
miRNA:   3'- -CGGUAGCUCuuucgGUGGCUCGCcca -5'
26788 5' -56.4 NC_005808.1 + 31216 0.69 0.401532
Target:  5'- cCCAUC-AGGucGCCACCGAGgugcCGGGc -3'
miRNA:   3'- cGGUAGcUCUuuCGGUGGCUC----GCCCa -5'
26788 5' -56.4 NC_005808.1 + 7208 0.69 0.409949
Target:  5'- uGCCAUCGGacugcgugauGAAgcccugcaacuucGGCCACUGGcGCGGGc -3'
miRNA:   3'- -CGGUAGCU----------CUU-------------UCGGUGGCU-CGCCCa -5'
26788 5' -56.4 NC_005808.1 + 11522 0.68 0.430008
Target:  5'- cGCUggCGuGAGGcCCugCGAGCGGGc -3'
miRNA:   3'- -CGGuaGCuCUUUcGGugGCUCGCCCa -5'
26788 5' -56.4 NC_005808.1 + 28565 0.68 0.449639
Target:  5'- gGCCAUCGcGGcgcgcacgucGGCCACCGgcAGCGuGGUg -3'
miRNA:   3'- -CGGUAGCuCUu---------UCGGUGGC--UCGC-CCA- -5'
26788 5' -56.4 NC_005808.1 + 25353 0.68 0.469753
Target:  5'- gGCCAguUCGcauAGccGGCCACCGGGCaGGc -3'
miRNA:   3'- -CGGU--AGC---UCuuUCGGUGGCUCGcCCa -5'
26788 5' -56.4 NC_005808.1 + 13224 0.68 0.449639
Target:  5'- cGCCGagucCGAGGgcuggggcaAGGCCACCGGcGCGuGGUu -3'
miRNA:   3'- -CGGUa---GCUCU---------UUCGGUGGCU-CGC-CCA- -5'
26788 5' -56.4 NC_005808.1 + 4036 0.67 0.543413
Target:  5'- uGCCGcgCGGGucGAGCgcaGCCGGGCGGa- -3'
miRNA:   3'- -CGGUa-GCUCu-UUCGg--UGGCUCGCCca -5'
26788 5' -56.4 NC_005808.1 + 36986 0.67 0.490317
Target:  5'- cGCCAcgCGcGAAAcgcaccCCGCCGAGUGGGc -3'
miRNA:   3'- -CGGUa-GCuCUUUc-----GGUGGCUCGCCCa -5'
26788 5' -56.4 NC_005808.1 + 18447 0.66 0.587195
Target:  5'- aGCCGUCGAGGcgcuGGGCCaggcgcgcaGCCG-GCuGGa -3'
miRNA:   3'- -CGGUAGCUCU----UUCGG---------UGGCuCGcCCa -5'
26788 5' -56.4 NC_005808.1 + 37126 0.66 0.584987
Target:  5'- cCCAUCGGcaacaccucGCCGCCcGGCGGGa -3'
miRNA:   3'- cGGUAGCUcuuu-----CGGUGGcUCGCCCa -5'
26788 5' -56.4 NC_005808.1 + 41046 0.66 0.580576
Target:  5'- aCCAUCGAGcgguucggcuuuaccAAGGCCgaacuGCUGGGCGGcGa -3'
miRNA:   3'- cGGUAGCUC---------------UUUCGG-----UGGCUCGCC-Ca -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.