miRNA display CGI


Results 1 - 20 of 51 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
25684 5' -59.7 NC_005337.1 + 129485 0.67 0.679964
Target:  5'- -uGCCuCACGGGGGcguGCACGGACCc--- -3'
miRNA:   3'- ucUGG-GUGCCCCU---CGUGCUUGGccuu -5'
25684 5' -59.7 NC_005337.1 + 122284 0.68 0.619429
Target:  5'- aGGACCgggaCGCGGaGGAGCuccGCGAGgCGGGc -3'
miRNA:   3'- -UCUGG----GUGCC-CCUCG---UGCUUgGCCUu -5'
25684 5' -59.7 NC_005337.1 + 120450 0.67 0.649759
Target:  5'- gAGuCCCuGCGGGGcgcgcucgAGCGCGcGCUGGAu -3'
miRNA:   3'- -UCuGGG-UGCCCC--------UCGUGCuUGGCCUu -5'
25684 5' -59.7 NC_005337.1 + 117830 0.68 0.599243
Target:  5'- gGGACCCggGCGGGGugcGCACGcAGgCGGu- -3'
miRNA:   3'- -UCUGGG--UGCCCCu--CGUGC-UUgGCCuu -5'
25684 5' -59.7 NC_005337.1 + 117272 0.67 0.639652
Target:  5'- cAGACCCcgacgagucgGCGGGGuccCGCGuGCUGGAGg -3'
miRNA:   3'- -UCUGGG----------UGCCCCuc-GUGCuUGGCCUU- -5'
25684 5' -59.7 NC_005337.1 + 115363 0.72 0.360735
Target:  5'- -uGCCCGCggacgugguGGGGAGCACGcACCuGGAAg -3'
miRNA:   3'- ucUGGGUG---------CCCCUCGUGCuUGG-CCUU- -5'
25684 5' -59.7 NC_005337.1 + 110013 0.66 0.699923
Target:  5'- cAGACUCAgCGucGGGAGCAUGAuguugGCgGGAAc -3'
miRNA:   3'- -UCUGGGU-GC--CCCUCGUGCU-----UGgCCUU- -5'
25684 5' -59.7 NC_005337.1 + 109568 0.69 0.529678
Target:  5'- cGGAacUCCGCGGGGuGCACGAuCCGc-- -3'
miRNA:   3'- -UCU--GGGUGCCCCuCGUGCUuGGCcuu -5'
25684 5' -59.7 NC_005337.1 + 103931 0.66 0.729422
Target:  5'- --gUCCGCGGGGcugguGUACGAGCCcGAGg -3'
miRNA:   3'- ucuGGGUGCCCCu----CGUGCUUGGcCUU- -5'
25684 5' -59.7 NC_005337.1 + 98906 0.69 0.55921
Target:  5'- cGAgCC-CGGGGAGUACacgguGAGCCGGc- -3'
miRNA:   3'- uCUgGGuGCCCCUCGUG-----CUUGGCCuu -5'
25684 5' -59.7 NC_005337.1 + 89569 0.66 0.709823
Target:  5'- cGGCCgCACGucGAGCACaccACCGGAAa -3'
miRNA:   3'- uCUGG-GUGCccCUCGUGcu-UGGCCUU- -5'
25684 5' -59.7 NC_005337.1 + 84453 0.7 0.481837
Target:  5'- aGGAgCCCGCGGaGGGCGCG-GCCGGc- -3'
miRNA:   3'- -UCU-GGGUGCCcCUCGUGCuUGGCCuu -5'
25684 5' -59.7 NC_005337.1 + 83321 0.67 0.659852
Target:  5'- cGACCgGCuaGGGGcgcGGCGCGAGgcgccCCGGGAg -3'
miRNA:   3'- uCUGGgUG--CCCC---UCGUGCUU-----GGCCUU- -5'
25684 5' -59.7 NC_005337.1 + 77433 0.66 0.719659
Target:  5'- gAGGCCCGCGuGGAGgGC-AugUGGAGg -3'
miRNA:   3'- -UCUGGGUGCcCCUCgUGcUugGCCUU- -5'
25684 5' -59.7 NC_005337.1 + 74169 0.7 0.491245
Target:  5'- cGugCUGCGGGaGGCGCGcucgGGCCGGGAg -3'
miRNA:   3'- uCugGGUGCCCcUCGUGC----UUGGCCUU- -5'
25684 5' -59.7 NC_005337.1 + 68492 0.66 0.729422
Target:  5'- cGGugCgCACcGGGGGCGCGGacagcGCCGGc- -3'
miRNA:   3'- -UCugG-GUGcCCCUCGUGCU-----UGGCCuu -5'
25684 5' -59.7 NC_005337.1 + 66234 0.67 0.679964
Target:  5'- -cGCCUcCGGGGAGCGuuCGAaGCUGGAc -3'
miRNA:   3'- ucUGGGuGCCCCUCGU--GCU-UGGCCUu -5'
25684 5' -59.7 NC_005337.1 + 64925 0.73 0.345249
Target:  5'- cGGCCCGCGcGGGAaaGCGCGcGCCGuGAu -3'
miRNA:   3'- uCUGGGUGC-CCCU--CGUGCuUGGC-CUu -5'
25684 5' -59.7 NC_005337.1 + 64792 0.67 0.649759
Target:  5'- gGGGuccUCCGCGcGGcGGCACGAcGCCGGAAc -3'
miRNA:   3'- -UCU---GGGUGC-CCcUCGUGCU-UGGCCUU- -5'
25684 5' -59.7 NC_005337.1 + 61747 0.67 0.679964
Target:  5'- uAGACCaCGCGGGuGucCAgGAACCGGc- -3'
miRNA:   3'- -UCUGG-GUGCCC-CucGUgCUUGGCCuu -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.