miRNA display CGI


Results 1 - 20 of 80 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
31007 3' -57 NC_006560.1 + 130627 0.66 0.879277
Target:  5'- gGCgugGGCCCGGcUGgccgcgaUCCAGGaCAcCCCc -3'
miRNA:   3'- aCG---UCGGGCC-ACa------AGGUCCaGUuGGG- -5'
31007 3' -57 NC_006560.1 + 14807 0.66 0.879277
Target:  5'- gGgGGCUCGG-GggCCggaGGGUCAgcggACCCa -3'
miRNA:   3'- aCgUCGGGCCaCaaGG---UCCAGU----UGGG- -5'
31007 3' -57 NC_006560.1 + 77422 0.66 0.879277
Target:  5'- cGCGcGCCCGGcgcUGccgUCCgAGGggcucgaggCGACCCa -3'
miRNA:   3'- aCGU-CGGGCC---ACa--AGG-UCCa--------GUUGGG- -5'
31007 3' -57 NC_006560.1 + 109735 0.66 0.879277
Target:  5'- aGCGGCCgGGcggggGUcCCAGGggacacUCGGCCg -3'
miRNA:   3'- aCGUCGGgCCa----CAaGGUCC------AGUUGGg -5'
31007 3' -57 NC_006560.1 + 127033 0.66 0.879277
Target:  5'- gUGCAGCacguacaCGGUGUgcgCCAGGgcgCuGACgCg -3'
miRNA:   3'- -ACGUCGg------GCCACAa--GGUCCa--G-UUGgG- -5'
31007 3' -57 NC_006560.1 + 144393 0.66 0.879277
Target:  5'- cGCGGgCCGGcgGgccccCCGGGccuccgCGACCCa -3'
miRNA:   3'- aCGUCgGGCCa-Caa---GGUCCa-----GUUGGG- -5'
31007 3' -57 NC_006560.1 + 99901 0.66 0.879277
Target:  5'- gGCGGCgCGGgGUUCau-GUCGGCCUc -3'
miRNA:   3'- aCGUCGgGCCaCAAGgucCAGUUGGG- -5'
31007 3' -57 NC_006560.1 + 15527 0.66 0.875001
Target:  5'- gGcCAGCCgGGUGaacauguacccggCCAGGcCGACCa -3'
miRNA:   3'- aC-GUCGGgCCACaa-----------GGUCCaGUUGGg -5'
31007 3' -57 NC_006560.1 + 59350 0.66 0.872108
Target:  5'- cGgGGCCCGGUcGgccgUCuCGGGgacgUCAGCCa -3'
miRNA:   3'- aCgUCGGGCCA-Ca---AG-GUCC----AGUUGGg -5'
31007 3' -57 NC_006560.1 + 50916 0.66 0.872108
Target:  5'- cUGCAGCCCGucgaGgccUCCGcGGUCccccugcuggcGACCCg -3'
miRNA:   3'- -ACGUCGGGCca--Ca--AGGU-CCAG-----------UUGGG- -5'
31007 3' -57 NC_006560.1 + 46555 0.66 0.864725
Target:  5'- --aAGCCgGGgcgccgUCCGGGUCGcagACCCc -3'
miRNA:   3'- acgUCGGgCCaca---AGGUCCAGU---UGGG- -5'
31007 3' -57 NC_006560.1 + 100900 0.66 0.864725
Target:  5'- --gAGCCCGGUGgga-AGGcCGACCg -3'
miRNA:   3'- acgUCGGGCCACaaggUCCaGUUGGg -5'
31007 3' -57 NC_006560.1 + 1139 0.66 0.864725
Target:  5'- -cCGGCCCGGccuccgggGUUCCuGG-CGGCCg -3'
miRNA:   3'- acGUCGGGCCa-------CAAGGuCCaGUUGGg -5'
31007 3' -57 NC_006560.1 + 39848 0.66 0.864725
Target:  5'- -cCAGCCCGaG-GUcgaccagcaugUCCAGGUCGGCggCCa -3'
miRNA:   3'- acGUCGGGC-CaCA-----------AGGUCCAGUUG--GG- -5'
31007 3' -57 NC_006560.1 + 27832 0.66 0.857135
Target:  5'- cGCGGCCgGGgGUgCCGGGgguGCCg -3'
miRNA:   3'- aCGUCGGgCCaCAaGGUCCaguUGGg -5'
31007 3' -57 NC_006560.1 + 19535 0.66 0.857135
Target:  5'- cGgAGCCCGGggcGUUCUccuccGG-CGGCCCc -3'
miRNA:   3'- aCgUCGGGCCa--CAAGGu----CCaGUUGGG- -5'
31007 3' -57 NC_006560.1 + 16032 0.66 0.857135
Target:  5'- cGgGGCgCCGGcaccccCCGGcGUCGACCCg -3'
miRNA:   3'- aCgUCG-GGCCacaa--GGUC-CAGUUGGG- -5'
31007 3' -57 NC_006560.1 + 15903 0.66 0.857135
Target:  5'- aGCAGCgaGGcGUUcaCCAGGgcgUGGCCCg -3'
miRNA:   3'- aCGUCGggCCaCAA--GGUCCa--GUUGGG- -5'
31007 3' -57 NC_006560.1 + 112 0.66 0.857135
Target:  5'- cGCGGCCgCGGccggcgcggguuUGggCgGGGcCGGCCCc -3'
miRNA:   3'- aCGUCGG-GCC------------ACaaGgUCCaGUUGGG- -5'
31007 3' -57 NC_006560.1 + 2819 0.66 0.857135
Target:  5'- gGgGGCCCGGUccaGUUgccggcCCAGG-CGGCCg -3'
miRNA:   3'- aCgUCGGGCCA---CAA------GGUCCaGUUGGg -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.