miRNA display CGI


Results 1 - 17 of 17 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
13398 3' -54.1 NC_003409.1 + 101146 0.65 0.951422
Target:  5'- aCUagAGGACCggaguuuGCCAGGGGgGUgcGGGa -3'
miRNA:   3'- -GAagUCCUGG-------UGGUCCCUgCGauUCU- -5'
13398 3' -54.1 NC_003409.1 + 116417 0.66 0.947564
Target:  5'- -gUCGGucCCGCCcGGGGCGCgAAGc -3'
miRNA:   3'- gaAGUCcuGGUGGuCCCUGCGaUUCu -5'
13398 3' -54.1 NC_003409.1 + 109167 0.66 0.928007
Target:  5'- gUUCGuGGCCGCCGgcuGGGACGCa---- -3'
miRNA:   3'- gAAGUcCUGGUGGU---CCCUGCGauucu -5'
13398 3' -54.1 NC_003409.1 + 121184 0.67 0.922495
Target:  5'- -cUUAGGG-CACCAGGGACuacCUAGGu -3'
miRNA:   3'- gaAGUCCUgGUGGUCCCUGc--GAUUCu -5'
13398 3' -54.1 NC_003409.1 + 111901 0.67 0.904467
Target:  5'- -gUCu---CCGCCAGGGACGCcgaUAGGGc -3'
miRNA:   3'- gaAGuccuGGUGGUCCCUGCG---AUUCU- -5'
13398 3' -54.1 NC_003409.1 + 36618 0.67 0.903828
Target:  5'- gCUUCAGGugCAUgagAGGGAacaccacUGCUGGGGa -3'
miRNA:   3'- -GAAGUCCugGUGg--UCCCU-------GCGAUUCU- -5'
13398 3' -54.1 NC_003409.1 + 42188 0.68 0.884243
Target:  5'- gCUUCAuGGCCACgugGGGGugGCacgGAGAg -3'
miRNA:   3'- -GAAGUcCUGGUGg--UCCCugCGa--UUCU- -5'
13398 3' -54.1 NC_003409.1 + 96420 0.68 0.884243
Target:  5'- cCUUCcguguGucCCACCAGGGGCGUaAGGGc -3'
miRNA:   3'- -GAAGu----CcuGGUGGUCCCUGCGaUUCU- -5'
13398 3' -54.1 NC_003409.1 + 96405 0.68 0.884243
Target:  5'- -gUCAGGACCACCauuuccuacGGGGACa------ -3'
miRNA:   3'- gaAGUCCUGGUGG---------UCCCUGcgauucu -5'
13398 3' -54.1 NC_003409.1 + 8523 0.68 0.877029
Target:  5'- -cUCAGGGCuCACCGGGGu--UUGAGGa -3'
miRNA:   3'- gaAGUCCUG-GUGGUCCCugcGAUUCU- -5'
13398 3' -54.1 NC_003409.1 + 22793 0.68 0.869587
Target:  5'- --aCAGGGgaaaCACCAGGGGCgGCgGAGGu -3'
miRNA:   3'- gaaGUCCUg---GUGGUCCCUG-CGaUUCU- -5'
13398 3' -54.1 NC_003409.1 + 46074 0.68 0.867311
Target:  5'- -gUCAGGACCuCUuuaugauuuucccaGGGGACGCguaucAGGAc -3'
miRNA:   3'- gaAGUCCUGGuGG--------------UCCCUGCGa----UUCU- -5'
13398 3' -54.1 NC_003409.1 + 95759 0.68 0.854041
Target:  5'- cCUUU-GGGCCGCUGGaGGACGCcucUGAGGa -3'
miRNA:   3'- -GAAGuCCUGGUGGUC-CCUGCG---AUUCU- -5'
13398 3' -54.1 NC_003409.1 + 103264 0.7 0.774601
Target:  5'- --aCAGG-CCACCAGGGAgGCc---- -3'
miRNA:   3'- gaaGUCCuGGUGGUCCCUgCGauucu -5'
13398 3' -54.1 NC_003409.1 + 56164 0.72 0.694783
Target:  5'- uUUCAGGGCaCACCGGGGGCa------ -3'
miRNA:   3'- gAAGUCCUG-GUGGUCCCUGcgauucu -5'
13398 3' -54.1 NC_003409.1 + 77564 0.77 0.423447
Target:  5'- --cCAGGGCCACCGuGGACGCUGu-- -3'
miRNA:   3'- gaaGUCCUGGUGGUcCCUGCGAUucu -5'
13398 3' -54.1 NC_003409.1 + 71136 1.09 0.003583
Target:  5'- gCUUCAGGACCACCAGGGACGCUAAGAa -3'
miRNA:   3'- -GAAGUCCUGGUGGUCCCUGCGAUUCU- -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.