miRNA display CGI


Results 1 - 16 of 16 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
27603 3' -52.6 NC_005882.1 + 9493 0.66 0.770651
Target:  5'- gCGAUUgGCGCGCugGCGgcCGCAa---- -3'
miRNA:   3'- -GCUAAgCGCGCG--CGCaaGCGUgaaag -5'
27603 3' -52.6 NC_005882.1 + 23357 0.66 0.760005
Target:  5'- ---aUCGCGUGCGgCGggccuucgCGCACgugUCg -3'
miRNA:   3'- gcuaAGCGCGCGC-GCaa------GCGUGaa-AG- -5'
27603 3' -52.6 NC_005882.1 + 12199 0.66 0.760005
Target:  5'- uCGAUUCGUGCGCuCGUgcgGUACg--- -3'
miRNA:   3'- -GCUAAGCGCGCGcGCAag-CGUGaaag -5'
27603 3' -52.6 NC_005882.1 + 12716 0.66 0.727261
Target:  5'- ---aUCGCGCGCGcCGUcugCGUAUUggCg -3'
miRNA:   3'- gcuaAGCGCGCGC-GCAa--GCGUGAaaG- -5'
27603 3' -52.6 NC_005882.1 + 12775 0.66 0.727261
Target:  5'- gCGAgcgccgcCGCGCGCuGCGUcucCGCGCgUUCc -3'
miRNA:   3'- -GCUaa-----GCGCGCG-CGCAa--GCGUGaAAG- -5'
27603 3' -52.6 NC_005882.1 + 4946 0.66 0.727261
Target:  5'- aCGAccucgUUGCGcCGCGCGUcgaacUCGCGCc--- -3'
miRNA:   3'- -GCUa----AGCGC-GCGCGCA-----AGCGUGaaag -5'
27603 3' -52.6 NC_005882.1 + 27873 0.67 0.716121
Target:  5'- ----aCGCGCG-GCGcUCGCGCUUc- -3'
miRNA:   3'- gcuaaGCGCGCgCGCaAGCGUGAAag -5'
27603 3' -52.6 NC_005882.1 + 27571 0.67 0.70489
Target:  5'- gCGGUcgcCGCGCGCGCGgcCGCcgGCa--- -3'
miRNA:   3'- -GCUAa--GCGCGCGCGCaaGCG--UGaaag -5'
27603 3' -52.6 NC_005882.1 + 21737 0.69 0.578927
Target:  5'- aGGUcCGCGCGCGCcgUCGCcagUUCg -3'
miRNA:   3'- gCUAaGCGCGCGCGcaAGCGugaAAG- -5'
27603 3' -52.6 NC_005882.1 + 6055 0.69 0.567554
Target:  5'- gGAUggaCGCcauacaugcguaGCGCGCGUugaaUCGCGCUaUCg -3'
miRNA:   3'- gCUAa--GCG------------CGCGCGCA----AGCGUGAaAG- -5'
27603 3' -52.6 NC_005882.1 + 20242 0.69 0.556238
Target:  5'- uCGAUUCGacCGgGCGCGcagCGCGCgUUCc -3'
miRNA:   3'- -GCUAAGC--GCgCGCGCaa-GCGUGaAAG- -5'
27603 3' -52.6 NC_005882.1 + 27004 0.69 0.544989
Target:  5'- gGAUUCGgGCGCGg---CGCGCUcgUCg -3'
miRNA:   3'- gCUAAGCgCGCGCgcaaGCGUGAa-AG- -5'
27603 3' -52.6 NC_005882.1 + 15069 0.7 0.500814
Target:  5'- ---gUCGCGCGCGCugaucgagUCGCGCaugUCg -3'
miRNA:   3'- gcuaAGCGCGCGCGca------AGCGUGaa-AG- -5'
27603 3' -52.6 NC_005882.1 + 10889 0.75 0.286975
Target:  5'- gGGUUCgucgcaGCGCGCGCGggCGCAUgcggaUUUCg -3'
miRNA:   3'- gCUAAG------CGCGCGCGCaaGCGUG-----AAAG- -5'
27603 3' -52.6 NC_005882.1 + 16700 0.75 0.265031
Target:  5'- gCGAcgUCGaCGCGCGCGUcCGCGCa--- -3'
miRNA:   3'- -GCUa-AGC-GCGCGCGCAaGCGUGaaag -5'
27603 3' -52.6 NC_005882.1 + 24582 1.11 0.000884
Target:  5'- uCGAUUCGCGCGCGCGUUCGCACUUUCa -3'
miRNA:   3'- -GCUAAGCGCGCGCGCAAGCGUGAAAG- -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.