miRNA display CGI


Results 1 - 19 of 19 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
8852 5' -56.2 NC_002484.1 + 40981 0.66 0.693939
Target:  5'- --cCGCCGAgGCCCaggcgcucaGGGAGGAAguCGCa- -3'
miRNA:   3'- cuuGCGGCU-CGGG---------UCCUUCUU--GCGcu -5'
8852 5' -56.2 NC_002484.1 + 24748 0.66 0.67229
Target:  5'- cGAGgGCCGGcGUUCGGGAGGAuAUGCa- -3'
miRNA:   3'- -CUUgCGGCU-CGGGUCCUUCU-UGCGcu -5'
8852 5' -56.2 NC_002484.1 + 51057 0.66 0.67229
Target:  5'- gGAACGCCucucGGCucuucucaacugCCGGGAAGcggucGGCGCGAu -3'
miRNA:   3'- -CUUGCGGc---UCG------------GGUCCUUC-----UUGCGCU- -5'
8852 5' -56.2 NC_002484.1 + 28819 0.66 0.649399
Target:  5'- -uACGCCGAugccaugcuaaagGCCaggaAGGAAGGAgGUGGg -3'
miRNA:   3'- cuUGCGGCU-------------CGGg---UCCUUCUUgCGCU- -5'
8852 5' -56.2 NC_002484.1 + 32203 0.66 0.639562
Target:  5'- ---aGCCGAGUCCcaggcgcuaaGGGAGGAAguCGCGc -3'
miRNA:   3'- cuugCGGCUCGGG----------UCCUUCUU--GCGCu -5'
8852 5' -56.2 NC_002484.1 + 41964 0.67 0.617693
Target:  5'- -uGCGCuCGGcuugcGCCCGaacGAAGAGCGCGGg -3'
miRNA:   3'- cuUGCG-GCU-----CGGGUc--CUUCUUGCGCU- -5'
8852 5' -56.2 NC_002484.1 + 36819 0.67 0.574176
Target:  5'- --cUGCCGAGa--AGGcGGAGCGCGAg -3'
miRNA:   3'- cuuGCGGCUCgggUCCuUCUUGCGCU- -5'
8852 5' -56.2 NC_002484.1 + 41401 0.68 0.563393
Target:  5'- cAGCGCCGcgagcGCCUgcaAGGAGGGGCGUa- -3'
miRNA:   3'- cUUGCGGCu----CGGG---UCCUUCUUGCGcu -5'
8852 5' -56.2 NC_002484.1 + 29448 0.68 0.531403
Target:  5'- uGACGacuaUGAGUCCAugcGGAAGGACGCa- -3'
miRNA:   3'- cUUGCg---GCUCGGGU---CCUUCUUGCGcu -5'
8852 5' -56.2 NC_002484.1 + 37278 0.68 0.520882
Target:  5'- -uACGCC-AGCCCcuaacggauuGGGAGcAGCGCGAg -3'
miRNA:   3'- cuUGCGGcUCGGGu---------CCUUC-UUGCGCU- -5'
8852 5' -56.2 NC_002484.1 + 49483 0.69 0.500094
Target:  5'- gGAGCGCUguGAGCaCCuGGAAcGAACGCc- -3'
miRNA:   3'- -CUUGCGG--CUCG-GGuCCUU-CUUGCGcu -5'
8852 5' -56.2 NC_002484.1 + 26074 0.7 0.449853
Target:  5'- --gUGCCGAagccaaccaGCaCCAGGGAGGccaGCGCGAc -3'
miRNA:   3'- cuuGCGGCU---------CG-GGUCCUUCU---UGCGCU- -5'
8852 5' -56.2 NC_002484.1 + 36778 0.7 0.449853
Target:  5'- -cGCGCCGAGC--AGGcuGAGCGUGAu -3'
miRNA:   3'- cuUGCGGCUCGggUCCuuCUUGCGCU- -5'
8852 5' -56.2 NC_002484.1 + 36997 0.7 0.439174
Target:  5'- -cGCGCCGAagcugccGCCCGcGAgcagaaGGAGCGCGAg -3'
miRNA:   3'- cuUGCGGCU-------CGGGUcCU------UCUUGCGCU- -5'
8852 5' -56.2 NC_002484.1 + 2284 0.7 0.421075
Target:  5'- cGAACGCCGAcGCCgCAccGGAAauGAGCGCc- -3'
miRNA:   3'- -CUUGCGGCU-CGG-GU--CCUU--CUUGCGcu -5'
8852 5' -56.2 NC_002484.1 + 36852 0.71 0.393437
Target:  5'- --cCGCUGAGCgCCGGGAacuGGAAuUGCGAc -3'
miRNA:   3'- cuuGCGGCUCG-GGUCCU---UCUU-GCGCU- -5'
8852 5' -56.2 NC_002484.1 + 4852 0.72 0.333703
Target:  5'- uGAugGCCGAGCgCGGcauGGAuACGCGAu -3'
miRNA:   3'- -CUugCGGCUCGgGUCcu-UCU-UGCGCU- -5'
8852 5' -56.2 NC_002484.1 + 36722 0.75 0.227125
Target:  5'- aGAGCGCCaacggcaggccgacGAGCaggCCAGGAucGAGCGCGAg -3'
miRNA:   3'- -CUUGCGG--------------CUCG---GGUCCUu-CUUGCGCU- -5'
8852 5' -56.2 NC_002484.1 + 36914 1.09 0.000889
Target:  5'- cGAACGCCGAGCCCAGGAAGAACGCGAc -3'
miRNA:   3'- -CUUGCGGCUCGGGUCCUUCUUGCGCU- -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.