miRNA display CGI


Results 1 - 20 of 48 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
19013 3' -54.7 NC_004684.1 + 28055 0.66 0.82948
Target:  5'- -aUgCCG-GUGGUCGgccccggcGGUguggCCGGGCCg -3'
miRNA:   3'- cgAgGGCuUACCAGC--------UCAa---GGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 53718 0.66 0.820526
Target:  5'- gGCggaugUCCGGcAUGGUgcCGGGUUCgAcGGCCa -3'
miRNA:   3'- -CGa----GGGCU-UACCA--GCUCAAGgU-CCGG- -5'
19013 3' -54.7 NC_004684.1 + 54214 0.66 0.820526
Target:  5'- uGCUCggggCCGA--GGUCGGccagcagcuGUUCCAGGgCa -3'
miRNA:   3'- -CGAG----GGCUuaCCAGCU---------CAAGGUCCgG- -5'
19013 3' -54.7 NC_004684.1 + 20810 0.66 0.820526
Target:  5'- cGCUCCuCGggU--UCGGGggugaCCGGGUCg -3'
miRNA:   3'- -CGAGG-GCuuAccAGCUCaa---GGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 33576 0.66 0.81962
Target:  5'- -aUCCCG--UGGUCGAccacgauGUUCUacaugaaugugGGGCCa -3'
miRNA:   3'- cgAGGGCuuACCAGCU-------CAAGG-----------UCCGG- -5'
19013 3' -54.7 NC_004684.1 + 49406 0.66 0.811382
Target:  5'- gGC-CgCCGAcgGGUCGA--UCCuggacggcaAGGCCa -3'
miRNA:   3'- -CGaG-GGCUuaCCAGCUcaAGG---------UCCGG- -5'
19013 3' -54.7 NC_004684.1 + 49205 0.66 0.811382
Target:  5'- uGCUCggUCGGccaGUcGGUCG-GUgCCGGGCCg -3'
miRNA:   3'- -CGAG--GGCU---UA-CCAGCuCAaGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 9262 0.66 0.811382
Target:  5'- uGCUcaucCCCGAGcUGGccgaugUCGAGUUCCcgacGCCg -3'
miRNA:   3'- -CGA----GGGCUU-ACC------AGCUCAAGGuc--CGG- -5'
19013 3' -54.7 NC_004684.1 + 24778 0.66 0.811382
Target:  5'- cGC-CUgGAAUGGUCGG----CAGGCCu -3'
miRNA:   3'- -CGaGGgCUUACCAGCUcaagGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 31308 0.66 0.811382
Target:  5'- gGCgUCaCCGGcgucggccaGGUCGucUUCCAGGCCc -3'
miRNA:   3'- -CG-AG-GGCUua-------CCAGCucAAGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 23100 0.66 0.802056
Target:  5'- cGCUgCCGAcgGcggccaGUCGGc--CCAGGCCg -3'
miRNA:   3'- -CGAgGGCUuaC------CAGCUcaaGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 11632 0.66 0.802056
Target:  5'- uGgUUgCGGGgcgGGUCGAuGUggcCCAGGCCc -3'
miRNA:   3'- -CgAGgGCUUa--CCAGCU-CAa--GGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 23904 0.66 0.802056
Target:  5'- cGCUCCUuGGUGGacuggaacaGAGUgacgCCAGcGCCg -3'
miRNA:   3'- -CGAGGGcUUACCag-------CUCAa---GGUC-CGG- -5'
19013 3' -54.7 NC_004684.1 + 52791 0.66 0.802056
Target:  5'- gGCgaggCCGAcgGGcgCGAGgaCCuGGCCa -3'
miRNA:   3'- -CGag--GGCUuaCCa-GCUCaaGGuCCGG- -5'
19013 3' -54.7 NC_004684.1 + 45624 0.66 0.796377
Target:  5'- --cCCCGGugcgccGGUCGAagagguggaugagcaGggCCAGGCCa -3'
miRNA:   3'- cgaGGGCUua----CCAGCU---------------CaaGGUCCGG- -5'
19013 3' -54.7 NC_004684.1 + 20818 0.66 0.792559
Target:  5'- cGCga-CGAcUGGgcuGAGUUCCuGGCCa -3'
miRNA:   3'- -CGaggGCUuACCag-CUCAAGGuCCGG- -5'
19013 3' -54.7 NC_004684.1 + 20271 0.67 0.782901
Target:  5'- cGUUCCCGGccccuGUGGUCGAca-CCAGcgagaagugcGCCg -3'
miRNA:   3'- -CGAGGGCU-----UACCAGCUcaaGGUC----------CGG- -5'
19013 3' -54.7 NC_004684.1 + 7600 0.67 0.773092
Target:  5'- --aCCCG-GUGGUCGuGUacuucaUCCGGuGCCc -3'
miRNA:   3'- cgaGGGCuUACCAGCuCA------AGGUC-CGG- -5'
19013 3' -54.7 NC_004684.1 + 51585 0.67 0.763143
Target:  5'- gGCggcgaCCGggUGGUCcaaGGUcUCCAGGUg -3'
miRNA:   3'- -CGag---GGCuuACCAGc--UCA-AGGUCCGg -5'
19013 3' -54.7 NC_004684.1 + 44722 0.67 0.763143
Target:  5'- cCUCCUGcGGUGGUUGuGUUUucggucgguaUAGGCCg -3'
miRNA:   3'- cGAGGGC-UUACCAGCuCAAG----------GUCCGG- -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.