miRNA display CGI


Results 1 - 20 of 40 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
23437 3' -60 NC_005259.1 + 3260 0.66 0.516465
Target:  5'- gUCGgCAuccuGCUCGGgugguuuccCGUCGCCGCCUc- -3'
miRNA:   3'- aAGCgGU----UGAGCC---------GCAGUGGCGGGag -5'
23437 3' -60 NC_005259.1 + 68261 0.66 0.516465
Target:  5'- --aGCCuugcGCUCGuCGUaggCACCGUCCUCg -3'
miRNA:   3'- aagCGGu---UGAGCcGCA---GUGGCGGGAG- -5'
23437 3' -60 NC_005259.1 + 57125 0.66 0.49635
Target:  5'- cUCGCCca-UCGGCGggACCgagcaguagugGCCCUCc -3'
miRNA:   3'- aAGCGGuugAGCCGCagUGG-----------CGGGAG- -5'
23437 3' -60 NC_005259.1 + 48528 0.66 0.486425
Target:  5'- -cUGCCGACuucUCGGCGcugUCGCCGgUCUUg -3'
miRNA:   3'- aaGCGGUUG---AGCCGC---AGUGGCgGGAG- -5'
23437 3' -60 NC_005259.1 + 46230 0.66 0.486425
Target:  5'- aUUgGUCAGCUCGGCu--GCCGCCUg- -3'
miRNA:   3'- -AAgCGGUUGAGCCGcagUGGCGGGag -5'
23437 3' -60 NC_005259.1 + 61150 0.66 0.476595
Target:  5'- -gUGCCGACUcaaggacaccgaCGGUGUaCGCCucgguaugGCCCUCg -3'
miRNA:   3'- aaGCGGUUGA------------GCCGCA-GUGG--------CGGGAG- -5'
23437 3' -60 NC_005259.1 + 29221 0.66 0.476595
Target:  5'- gUUCGCCAGcCUCGGCGcguuccugaUCAucCUGUCCaUCg -3'
miRNA:   3'- -AAGCGGUU-GAGCCGC---------AGU--GGCGGG-AG- -5'
23437 3' -60 NC_005259.1 + 52370 0.67 0.466865
Target:  5'- aUCGCCGACUCaaGCGgCugCGCagccugCCUCg -3'
miRNA:   3'- aAGCGGUUGAGc-CGCaGugGCG------GGAG- -5'
23437 3' -60 NC_005259.1 + 68455 0.67 0.44772
Target:  5'- cUCGaCCAGCUUGGU--CACCGCCgUg -3'
miRNA:   3'- aAGC-GGUUGAGCCGcaGUGGCGGgAg -5'
23437 3' -60 NC_005259.1 + 21478 0.67 0.44772
Target:  5'- --aGCCGA-UCcGCGaacugCACCGCCCUCg -3'
miRNA:   3'- aagCGGUUgAGcCGCa----GUGGCGGGAG- -5'
23437 3' -60 NC_005259.1 + 17361 0.67 0.44772
Target:  5'- gUCGgCGGCUCGGCGcuggucguggUCgacugcgacacuGCCGCCCa- -3'
miRNA:   3'- aAGCgGUUGAGCCGC----------AG------------UGGCGGGag -5'
23437 3' -60 NC_005259.1 + 12160 0.67 0.44772
Target:  5'- -cCGCCGA--CGGC---ACCGCCCUCg -3'
miRNA:   3'- aaGCGGUUgaGCCGcagUGGCGGGAG- -5'
23437 3' -60 NC_005259.1 + 12331 0.67 0.429018
Target:  5'- -cCGCCAGCUCa-CG-CACCGCcgCCUCg -3'
miRNA:   3'- aaGCGGUUGAGccGCaGUGGCG--GGAG- -5'
23437 3' -60 NC_005259.1 + 19058 0.67 0.419842
Target:  5'- -gCGCCaccgAugUCGGUGUCGCgGUCCg- -3'
miRNA:   3'- aaGCGG----UugAGCCGCAGUGgCGGGag -5'
23437 3' -60 NC_005259.1 + 38640 0.68 0.410785
Target:  5'- -aCGCCGAgUUGGCGaacUCGCCGaaaucgaccaCCUCg -3'
miRNA:   3'- aaGCGGUUgAGCCGC---AGUGGCg---------GGAG- -5'
23437 3' -60 NC_005259.1 + 40663 0.68 0.409886
Target:  5'- cUCGCCGAgcagcgcgagcgcCUUGGUGcUCACCGgCCCg- -3'
miRNA:   3'- aAGCGGUU-------------GAGCCGC-AGUGGC-GGGag -5'
23437 3' -60 NC_005259.1 + 9697 0.68 0.401851
Target:  5'- gUCGCCGcucACUgGGC---ACCGUCCUCg -3'
miRNA:   3'- aAGCGGU---UGAgCCGcagUGGCGGGAG- -5'
23437 3' -60 NC_005259.1 + 13002 0.68 0.393041
Target:  5'- gUUCGC--ACUCGGCuacGcCGCCGCCCg- -3'
miRNA:   3'- -AAGCGguUGAGCCG---CaGUGGCGGGag -5'
23437 3' -60 NC_005259.1 + 45377 0.68 0.393041
Target:  5'- uUUUGCCcgaggaauuuCUCGGgGUCGCCGCCg-- -3'
miRNA:   3'- -AAGCGGuu--------GAGCCgCAGUGGCGGgag -5'
23437 3' -60 NC_005259.1 + 14285 0.68 0.392167
Target:  5'- -cCGCCugcccaaccaccgAugUCGGUGcguaUgGCCGCCCUCg -3'
miRNA:   3'- aaGCGG-------------UugAGCCGC----AgUGGCGGGAG- -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.