miRNA display CGI


Results 1 - 20 of 28 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
13998 5' -55.4 NC_003521.1 + 222686 0.66 0.975819
Target:  5'- cAGCGGcucgaCCUCGgugcgGCCGGGcGUGCGGa -3'
miRNA:   3'- -UUGCUcaa--GGAGC-----UGGUCCuCACGCC- -5'
13998 5' -55.4 NC_003521.1 + 172490 0.66 0.973296
Target:  5'- cGGCGGGauaggaaUCCUCGuCCAGGGGauaCGGg -3'
miRNA:   3'- -UUGCUCa------AGGAGCuGGUCCUCac-GCC- -5'
13998 5' -55.4 NC_003521.1 + 87802 0.66 0.973296
Target:  5'- -uCGGGcggCCUgGGCCAGGA--GCGGa -3'
miRNA:   3'- uuGCUCaa-GGAgCUGGUCCUcaCGCC- -5'
13998 5' -55.4 NC_003521.1 + 156999 0.66 0.96459
Target:  5'- gGACGGGUaCCUaCGGCCacaacGGGAGUaGCaGGu -3'
miRNA:   3'- -UUGCUCAaGGA-GCUGG-----UCCUCA-CG-CC- -5'
13998 5' -55.4 NC_003521.1 + 63265 0.67 0.957785
Target:  5'- uGACGAGUccuUCCUCGGCgAccGGGUGCa- -3'
miRNA:   3'- -UUGCUCA---AGGAGCUGgUc-CUCACGcc -5'
13998 5' -55.4 NC_003521.1 + 97836 0.67 0.954068
Target:  5'- cGCGAccgCCggugCGACagagAGGGGUGCGGg -3'
miRNA:   3'- uUGCUcaaGGa---GCUGg---UCCUCACGCC- -5'
13998 5' -55.4 NC_003521.1 + 64087 0.67 0.950135
Target:  5'- uGCGAG--CC-CGGCCuGGAG-GCGGg -3'
miRNA:   3'- uUGCUCaaGGaGCUGGuCCUCaCGCC- -5'
13998 5' -55.4 NC_003521.1 + 35379 0.67 0.950135
Target:  5'- -cCGAGUcccCCUCGGCgAGGAc-GCGGg -3'
miRNA:   3'- uuGCUCAa--GGAGCUGgUCCUcaCGCC- -5'
13998 5' -55.4 NC_003521.1 + 88301 0.67 0.950135
Target:  5'- uGGCGcAGggccgCCUCGAUgAGGA-UGCGGg -3'
miRNA:   3'- -UUGC-UCaa---GGAGCUGgUCCUcACGCC- -5'
13998 5' -55.4 NC_003521.1 + 98551 0.67 0.944697
Target:  5'- cGGCGGGUcCCagcccgagcccgagUCGGCCgAGGAGgaGCGGg -3'
miRNA:   3'- -UUGCUCAaGG--------------AGCUGG-UCCUCa-CGCC- -5'
13998 5' -55.4 NC_003521.1 + 13176 0.67 0.941613
Target:  5'- aGGCGGG-UCCU-GACCAGGcGUGCc- -3'
miRNA:   3'- -UUGCUCaAGGAgCUGGUCCuCACGcc -5'
13998 5' -55.4 NC_003521.1 + 208929 0.67 0.941613
Target:  5'- -cCGcAGUUCCUgugccgCGGCCuGGcGGUGCGGu -3'
miRNA:   3'- uuGC-UCAAGGA------GCUGGuCC-UCACGCC- -5'
13998 5' -55.4 NC_003521.1 + 53855 0.68 0.931706
Target:  5'- cGACGGcgUCCUCGGCCGGcguguacGAGUGCc- -3'
miRNA:   3'- -UUGCUcaAGGAGCUGGUC-------CUCACGcc -5'
13998 5' -55.4 NC_003521.1 + 216234 0.68 0.927155
Target:  5'- aGACGAGg-CCUaCGAgCGGGAG-GUGGa -3'
miRNA:   3'- -UUGCUCaaGGA-GCUgGUCCUCaCGCC- -5'
13998 5' -55.4 NC_003521.1 + 100082 0.68 0.915828
Target:  5'- aGGCGGGcgCCUCGACCgccgacgAGGAcucGcGCGGg -3'
miRNA:   3'- -UUGCUCaaGGAGCUGG-------UCCU---CaCGCC- -5'
13998 5' -55.4 NC_003521.1 + 141275 0.69 0.904728
Target:  5'- uACGAGUUCCccgccuccgCGA-CAGGugcaGGUGCGGg -3'
miRNA:   3'- uUGCUCAAGGa--------GCUgGUCC----UCACGCC- -5'
13998 5' -55.4 NC_003521.1 + 11791 0.69 0.892181
Target:  5'- cGAgGAGUcCCUCGAgcccCUAGGGGUGCu- -3'
miRNA:   3'- -UUgCUCAaGGAGCU----GGUCCUCACGcc -5'
13998 5' -55.4 NC_003521.1 + 228961 0.7 0.871758
Target:  5'- --gGAGUccUCCUCGuCCgAGGAGgugcGCGGg -3'
miRNA:   3'- uugCUCA--AGGAGCuGG-UCCUCa---CGCC- -5'
13998 5' -55.4 NC_003521.1 + 89038 0.7 0.857122
Target:  5'- -gUGAGUUCCUCG-CCGcucauGGUGCGGg -3'
miRNA:   3'- uuGCUCAAGGAGCuGGUcc---UCACGCC- -5'
13998 5' -55.4 NC_003521.1 + 34073 0.7 0.849514
Target:  5'- --gGGGUUgaCCUCGugCAGGgaGGUGUGGu -3'
miRNA:   3'- uugCUCAA--GGAGCugGUCC--UCACGCC- -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.