miRNA display CGI


Results 1 - 20 of 29 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
23301 5' -61.3 NC_005259.1 + 18789 1.1 0.000295
Target:  5'- gCAAGCGGUGGCAGGGACGCCGCACCCu -3'
miRNA:   3'- -GUUCGCCACCGUCCCUGCGGCGUGGG- -5'
23301 5' -61.3 NC_005259.1 + 35672 0.76 0.098433
Target:  5'- --cGCGGUGGUGGugcacagcGACGCCGUGCCCg -3'
miRNA:   3'- guuCGCCACCGUCc-------CUGCGGCGUGGG- -5'
23301 5' -61.3 NC_005259.1 + 51642 0.72 0.189654
Target:  5'- gGAGCGGUaGGCGaacGGGuuGCCGCGCg- -3'
miRNA:   3'- gUUCGCCA-CCGU---CCCugCGGCGUGgg -5'
23301 5' -61.3 NC_005259.1 + 6199 0.72 0.199521
Target:  5'- uGAGCaGcGUGaGCGGGGugagcCGCCGCGCCg -3'
miRNA:   3'- gUUCG-C-CAC-CGUCCCu----GCGGCGUGGg -5'
23301 5' -61.3 NC_005259.1 + 48050 0.71 0.226156
Target:  5'- ---cCGGUGGCcacggcGGGuagcgcCGCCGCGCCCu -3'
miRNA:   3'- guucGCCACCGu-----CCCu-----GCGGCGUGGG- -5'
23301 5' -61.3 NC_005259.1 + 60425 0.71 0.226156
Target:  5'- -cGGgGGUGGCccacGGGGCgGCCaCGCCCg -3'
miRNA:   3'- guUCgCCACCGu---CCCUG-CGGcGUGGG- -5'
23301 5' -61.3 NC_005259.1 + 21390 0.7 0.249583
Target:  5'- gAGGCGGUGcaacgcGCAuGGGACGCCcGUagACCUg -3'
miRNA:   3'- gUUCGCCAC------CGU-CCCUGCGG-CG--UGGG- -5'
23301 5' -61.3 NC_005259.1 + 32589 0.7 0.249583
Target:  5'- -cAGCGGUuuacgcgcGuGCA-GGACGCCGaCACCCu -3'
miRNA:   3'- guUCGCCA--------C-CGUcCCUGCGGC-GUGGG- -5'
23301 5' -61.3 NC_005259.1 + 43954 0.7 0.281642
Target:  5'- -cGGCGaugGGCGGGGcCGCCGCcugACCg -3'
miRNA:   3'- guUCGCca-CCGUCCCuGCGGCG---UGGg -5'
23301 5' -61.3 NC_005259.1 + 32099 0.69 0.288433
Target:  5'- cCGGGCGGUGGC-GGGAaauaGCUcuCACCg -3'
miRNA:   3'- -GUUCGCCACCGuCCCUg---CGGc-GUGGg -5'
23301 5' -61.3 NC_005259.1 + 18381 0.69 0.295352
Target:  5'- aGGGCGGUaGCgAGGGAgacgagcaccuCGCCGaGCCCg -3'
miRNA:   3'- gUUCGCCAcCG-UCCCU-----------GCGGCgUGGG- -5'
23301 5' -61.3 NC_005259.1 + 50438 0.69 0.3024
Target:  5'- -cAGCGGUgcgGGCucGGGGuCGCCGguCUCg -3'
miRNA:   3'- guUCGCCA---CCG--UCCCuGCGGCguGGG- -5'
23301 5' -61.3 NC_005259.1 + 58796 0.69 0.3024
Target:  5'- gAGGCGGUgauugccucGGCGGGcucGCGCUgcucgGCACCCu -3'
miRNA:   3'- gUUCGCCA---------CCGUCCc--UGCGG-----CGUGGG- -5'
23301 5' -61.3 NC_005259.1 + 63645 0.69 0.309576
Target:  5'- gCGAGCuGcucgcUGGCcGGGACGCCGgACaCCu -3'
miRNA:   3'- -GUUCGcC-----ACCGuCCCUGCGGCgUG-GG- -5'
23301 5' -61.3 NC_005259.1 + 32526 0.69 0.33188
Target:  5'- gAGGCGGgcGGCAGGcuuGACcuugcuguugGCCGC-CCCg -3'
miRNA:   3'- gUUCGCCa-CCGUCC---CUG----------CGGCGuGGG- -5'
23301 5' -61.3 NC_005259.1 + 58563 0.68 0.339573
Target:  5'- uCGGGCGGUugGGCcGGaucgcGGCGCgGCugCCg -3'
miRNA:   3'- -GUUCGCCA--CCGuCC-----CUGCGgCGugGG- -5'
23301 5' -61.3 NC_005259.1 + 24113 0.68 0.347393
Target:  5'- ---aUGGgaccgGGCGGGGAcuacacCGCCGcCGCCCu -3'
miRNA:   3'- guucGCCa----CCGUCCCU------GCGGC-GUGGG- -5'
23301 5' -61.3 NC_005259.1 + 19851 0.68 0.379111
Target:  5'- --cGCGcucgguGUGGCGcucgcgcccgccGGGAucgccgaCGCCGCGCCCa -3'
miRNA:   3'- guuCGC------CACCGU------------CCCU-------GCGGCGUGGG- -5'
23301 5' -61.3 NC_005259.1 + 58344 0.67 0.388401
Target:  5'- uCAGGuCGGUGGCcucGGGcACGUCGCAg-- -3'
miRNA:   3'- -GUUC-GCCACCGu--CCC-UGCGGCGUggg -5'
23301 5' -61.3 NC_005259.1 + 61945 0.67 0.400439
Target:  5'- --cGCgGGUGcCGGGGccaccgcagccucacGCGCCGCugCCu -3'
miRNA:   3'- guuCG-CCACcGUCCC---------------UGCGGCGugGG- -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.