miRNA display CGI


Results 1 - 20 of 68 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
23466 3' -60 NC_005259.1 + 58950 0.88 0.019962
Target:  5'- aGCGUCGgccuuggccagcAGGUCGGGCAGCUCGUCGgCg -3'
miRNA:   3'- -CGCAGC------------UCCGGCCCGUCGAGUAGCgG- -5'
23466 3' -60 NC_005259.1 + 17353 0.79 0.079916
Target:  5'- cCGUCGAGGUC-GGCGGCUCggCGCUg -3'
miRNA:   3'- cGCAGCUCCGGcCCGUCGAGuaGCGG- -5'
23466 3' -60 NC_005259.1 + 3318 0.78 0.089079
Target:  5'- uGCGUCGAcgugaGcGCCGGGCAGCUCugcgUGCUc -3'
miRNA:   3'- -CGCAGCU-----C-CGGCCCGUCGAGua--GCGG- -5'
23466 3' -60 NC_005259.1 + 11307 0.77 0.104714
Target:  5'- gGCGU-GAGGCCGaGacgggcgcGCAGCUCGUCGUCg -3'
miRNA:   3'- -CGCAgCUCCGGC-C--------CGUCGAGUAGCGG- -5'
23466 3' -60 NC_005259.1 + 44324 0.77 0.107559
Target:  5'- cGUGUUGAGcgccgcguagcuGCCGGGCuuguuccacGGCUCGUUGCCg -3'
miRNA:   3'- -CGCAGCUC------------CGGCCCG---------UCGAGUAGCGG- -5'
23466 3' -60 NC_005259.1 + 10629 0.76 0.126205
Target:  5'- uGCGUCGAGGCCGaaCAGCUUGgccUCGCg -3'
miRNA:   3'- -CGCAGCUCCGGCccGUCGAGU---AGCGg -5'
23466 3' -60 NC_005259.1 + 49587 0.76 0.135539
Target:  5'- gGCGggCGGGGUcagcaccucgaccuCGGGCAGCUCAucaUCGUCa -3'
miRNA:   3'- -CGCa-GCUCCG--------------GCCCGUCGAGU---AGCGG- -5'
23466 3' -60 NC_005259.1 + 61034 0.76 0.139888
Target:  5'- gGCGgCGAGGUcgaccgaCGGGCGGCUCAccuugUGCCg -3'
miRNA:   3'- -CGCaGCUCCG-------GCCCGUCGAGUa----GCGG- -5'
23466 3' -60 NC_005259.1 + 45627 0.76 0.140256
Target:  5'- cCGcCG-GGCCGGGCAGCg---CGCCg -3'
miRNA:   3'- cGCaGCuCCGGCCCGUCGaguaGCGG- -5'
23466 3' -60 NC_005259.1 + 50678 0.75 0.147808
Target:  5'- cGCGUCGGuGCCGacgaGGCGcuGCUCGUCGUCg -3'
miRNA:   3'- -CGCAGCUcCGGC----CCGU--CGAGUAGCGG- -5'
23466 3' -60 NC_005259.1 + 36128 0.74 0.181836
Target:  5'- aGCaGUUGGGccGCCGGGCuGUcCGUCGCCa -3'
miRNA:   3'- -CG-CAGCUC--CGGCCCGuCGaGUAGCGG- -5'
23466 3' -60 NC_005259.1 + 1595 0.73 0.217122
Target:  5'- -gGUCGAGGUCaGGGCAcaauuggcccucGuCUCGUCGCUa -3'
miRNA:   3'- cgCAGCUCCGG-CCCGU------------C-GAGUAGCGG- -5'
23466 3' -60 NC_005259.1 + 42546 0.72 0.264453
Target:  5'- ---cCGAGGUggCGGGCAGCUCGgcgagcaGCCg -3'
miRNA:   3'- cgcaGCUCCG--GCCCGUCGAGUag-----CGG- -5'
23466 3' -60 NC_005259.1 + 54697 0.72 0.264453
Target:  5'- cGUGUCGAGG-CGGGUGGcCUCA--GCCu -3'
miRNA:   3'- -CGCAGCUCCgGCCCGUC-GAGUagCGG- -5'
23466 3' -60 NC_005259.1 + 52894 0.72 0.264453
Target:  5'- cGCG-CGAGuaCGGGCAccuGCUCAcgacCGCCg -3'
miRNA:   3'- -CGCaGCUCcgGCCCGU---CGAGUa---GCGG- -5'
23466 3' -60 NC_005259.1 + 59136 0.71 0.270925
Target:  5'- aGCGUCGAGcucggcagcgguGCCGGGgAgcuGCUCAgggCGCUu -3'
miRNA:   3'- -CGCAGCUC------------CGGCCCgU---CGAGUa--GCGG- -5'
23466 3' -60 NC_005259.1 + 4348 0.71 0.270925
Target:  5'- cGCGgugaUGAGcGCCGgacGGCAcgcccgugcccuGCUCAUCGCCa -3'
miRNA:   3'- -CGCa---GCUC-CGGC---CCGU------------CGAGUAGCGG- -5'
23466 3' -60 NC_005259.1 + 17802 0.71 0.277523
Target:  5'- cGCGauagCGAGGCCGGuG-AGCUCAgcgagGCCa -3'
miRNA:   3'- -CGCa---GCUCCGGCC-CgUCGAGUag---CGG- -5'
23466 3' -60 NC_005259.1 + 66258 0.71 0.277523
Target:  5'- aGCG-CGGcccGcGCCGGGCggcGGCUCA-CGCCg -3'
miRNA:   3'- -CGCaGCU---C-CGGCCCG---UCGAGUaGCGG- -5'
23466 3' -60 NC_005259.1 + 20480 0.71 0.28425
Target:  5'- cCGUCGAccucgacaccGCCcGGCAGCUCAUCGgCg -3'
miRNA:   3'- cGCAGCUc---------CGGcCCGUCGAGUAGCgG- -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.