miRNA display CGI


Results 1 - 20 of 27 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
18463 5' -57.3 NC_004681.1 + 48118 0.66 0.704249
Target:  5'- -gCGGGGG-GCuCAACCaUCUG-CACGUc -3'
miRNA:   3'- aaGCUCCCaCG-GUUGG-AGGCaGUGCG- -5'
18463 5' -57.3 NC_004681.1 + 48674 0.66 0.692728
Target:  5'- -gCGAGGGcgugGCCcacgaugcagcagGGCUgggugcugCCGUCGCGCu -3'
miRNA:   3'- aaGCUCCCa---CGG-------------UUGGa-------GGCAGUGCG- -5'
18463 5' -57.3 NC_004681.1 + 18819 0.66 0.682196
Target:  5'- -cCGAGGGUgaaGUCAGCCUCaugggggCGgagCugGCg -3'
miRNA:   3'- aaGCUCCCA---CGGUUGGAG-------GCa--GugCG- -5'
18463 5' -57.3 NC_004681.1 + 12754 0.66 0.66207
Target:  5'- -aUGGGGGUGCCcccauCCacgCCGUCA-GCc -3'
miRNA:   3'- aaGCUCCCACGGuu---GGa--GGCAGUgCG- -5'
18463 5' -57.3 NC_004681.1 + 44213 0.66 0.66207
Target:  5'- cUCGGGGGUGaggCAgguGCCUuuGUgGCGg -3'
miRNA:   3'- aAGCUCCCACg--GU---UGGAggCAgUGCg -5'
18463 5' -57.3 NC_004681.1 + 41995 0.67 0.651435
Target:  5'- -gCGGGGGcgaucucgGCCAGCCU-UGUCgACGCc -3'
miRNA:   3'- aaGCUCCCa-------CGGUUGGAgGCAG-UGCG- -5'
18463 5' -57.3 NC_004681.1 + 57922 0.67 0.640784
Target:  5'- --gGAGGG-GCCAGCC-CCGcUCcuuCGCc -3'
miRNA:   3'- aagCUCCCaCGGUUGGaGGC-AGu--GCG- -5'
18463 5' -57.3 NC_004681.1 + 50412 0.67 0.619467
Target:  5'- cUCGGGGGUGCCcauGAgUUCagCGUCGgcCGCg -3'
miRNA:   3'- aAGCUCCCACGG---UUgGAG--GCAGU--GCG- -5'
18463 5' -57.3 NC_004681.1 + 73473 0.67 0.619467
Target:  5'- cUCGAGGacaGUGCCAACacggCCGUUccuguguCGCa -3'
miRNA:   3'- aAGCUCC---CACGGUUGga--GGCAGu------GCG- -5'
18463 5' -57.3 NC_004681.1 + 47438 0.67 0.60563
Target:  5'- gUCGGGuGGaUGCuCAACCUCCacgagugccaucagGUCGcCGCg -3'
miRNA:   3'- aAGCUC-CC-ACG-GUUGGAGG--------------CAGU-GCG- -5'
18463 5' -57.3 NC_004681.1 + 53731 0.68 0.587592
Target:  5'- -cCGAccaGGGcGCCGucguucuugGCCUCCGUCugGg -3'
miRNA:   3'- aaGCU---CCCaCGGU---------UGGAGGCAGugCg -5'
18463 5' -57.3 NC_004681.1 + 23603 0.68 0.577026
Target:  5'- -aCGGGGGUgGCCAuccGCCUCCuccugGUCcCGUu -3'
miRNA:   3'- aaGCUCCCA-CGGU---UGGAGG-----CAGuGCG- -5'
18463 5' -57.3 NC_004681.1 + 27560 0.68 0.577026
Target:  5'- cUCGGGGGUGau--CUUCUGUC-CGCu -3'
miRNA:   3'- aAGCUCCCACgguuGGAGGCAGuGCG- -5'
18463 5' -57.3 NC_004681.1 + 68901 0.68 0.577026
Target:  5'- aUCGAGGc-GCUGACCaUCGUCACGg -3'
miRNA:   3'- aAGCUCCcaCGGUUGGaGGCAGUGCg -5'
18463 5' -57.3 NC_004681.1 + 33663 0.68 0.566503
Target:  5'- --gGAGcaGGUGgCgAACCUCCG-CGCGCg -3'
miRNA:   3'- aagCUC--CCAC-GgUUGGAGGCaGUGCG- -5'
18463 5' -57.3 NC_004681.1 + 7019 0.68 0.535261
Target:  5'- -aCGAGGGgcacaucaGCaCcgUCUCCGUCGCGUu -3'
miRNA:   3'- aaGCUCCCa-------CG-GuuGGAGGCAGUGCG- -5'
18463 5' -57.3 NC_004681.1 + 3730 0.68 0.535261
Target:  5'- -gCGAGGGcgGCCuGCUUCUuGUCGCGg -3'
miRNA:   3'- aaGCUCCCa-CGGuUGGAGG-CAGUGCg -5'
18463 5' -57.3 NC_004681.1 + 5437 0.68 0.535261
Target:  5'- --gGAGGcGUGCCAgcGCCUgUG-CGCGCu -3'
miRNA:   3'- aagCUCC-CACGGU--UGGAgGCaGUGCG- -5'
18463 5' -57.3 NC_004681.1 + 73263 0.69 0.524978
Target:  5'- -gCGGcuGGaGUGCCAGuacugcggUCUCCGUUACGCu -3'
miRNA:   3'- aaGCU--CC-CACGGUU--------GGAGGCAGUGCG- -5'
18463 5' -57.3 NC_004681.1 + 39430 0.69 0.514771
Target:  5'- -gCGGGGGUGCCAGgCUUCCacc-CGCa -3'
miRNA:   3'- aaGCUCCCACGGUU-GGAGGcaguGCG- -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.