miRNA display CGI


Results 1 - 20 of 54 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
28065 3' -64.4 NC_005887.1 + 4142 0.65 0.242327
Target:  5'- cAAGGCUGCG-CGCGaC-UGGCUcggguauugagccGGCCa -3'
miRNA:   3'- -UUCCGGCGCuGCGCcGcACCGA-------------CCGG- -5'
28065 3' -64.4 NC_005887.1 + 16859 0.66 0.236901
Target:  5'- cGAGGuguaCCGCGGCGCGGac-GGCUcgacaGGCa -3'
miRNA:   3'- -UUCC----GGCGCUGCGCCgcaCCGA-----CCGg -5'
28065 3' -64.4 NC_005887.1 + 34342 0.66 0.236901
Target:  5'- --uGCCGUGGCGcCGGCcacGGCUGGagaCg -3'
miRNA:   3'- uucCGGCGCUGC-GCCGca-CCGACCg--G- -5'
28065 3' -64.4 NC_005887.1 + 17893 0.66 0.230992
Target:  5'- --cGCCGCGACgaugaaguucgGCGGCGUcacaGGUUGGaCg -3'
miRNA:   3'- uucCGGCGCUG-----------CGCCGCA----CCGACCgG- -5'
28065 3' -64.4 NC_005887.1 + 1833 0.66 0.230992
Target:  5'- --uGCCGCG-CGCcGCGUGGUggauGCCg -3'
miRNA:   3'- uucCGGCGCuGCGcCGCACCGac--CGG- -5'
28065 3' -64.4 NC_005887.1 + 40860 0.66 0.230992
Target:  5'- -cGGCCGCGccGCGCGaGCGccGCacGCCg -3'
miRNA:   3'- uuCCGGCGC--UGCGC-CGCacCGacCGG- -5'
28065 3' -64.4 NC_005887.1 + 27370 0.66 0.230992
Target:  5'- -cGGCCuGCGcggccuGCGCGGCGUaGGCgucgaguugcGGCg -3'
miRNA:   3'- uuCCGG-CGC------UGCGCCGCA-CCGa---------CCGg -5'
28065 3' -64.4 NC_005887.1 + 4596 0.66 0.229244
Target:  5'- cAGGCCGCGcagauGCaacagaugcucgccGCGGCGccGgUGGCCg -3'
miRNA:   3'- uUCCGGCGC-----UG--------------CGCCGCacCgACCGG- -5'
28065 3' -64.4 NC_005887.1 + 25496 0.66 0.225208
Target:  5'- -cGGCgGCucggacgauGGCGCGGCGggUGGC-GGCa -3'
miRNA:   3'- uuCCGgCG---------CUGCGCCGC--ACCGaCCGg -5'
28065 3' -64.4 NC_005887.1 + 1582 0.66 0.219547
Target:  5'- uGGGCCG-GugGgUGG-GUGGC-GGCCu -3'
miRNA:   3'- uUCCGGCgCugC-GCCgCACCGaCCGG- -5'
28065 3' -64.4 NC_005887.1 + 11811 0.66 0.219547
Target:  5'- --cGCUGCuGCGUGGCGUcucGGCcgacGGCCg -3'
miRNA:   3'- uucCGGCGcUGCGCCGCA---CCGa---CCGG- -5'
28065 3' -64.4 NC_005887.1 + 41528 0.66 0.219547
Target:  5'- -cGGCCGCGaucGCGCGaGCaUGGCUGu-- -3'
miRNA:   3'- uuCCGGCGC---UGCGC-CGcACCGACcgg -5'
28065 3' -64.4 NC_005887.1 + 21028 0.66 0.218988
Target:  5'- -cGGCCGaugcgguCGGCGCGGUG-GGC-GuGCCc -3'
miRNA:   3'- uuCCGGC-------GCUGCGCCGCaCCGaC-CGG- -5'
28065 3' -64.4 NC_005887.1 + 39417 0.66 0.21621
Target:  5'- cGGuGCCGCGGCGCuugcgcagcuuGGCGgcggcgucguucgcGGC-GGCCg -3'
miRNA:   3'- uUC-CGGCGCUGCG-----------CCGCa-------------CCGaCCGG- -5'
28065 3' -64.4 NC_005887.1 + 23236 0.66 0.214008
Target:  5'- -cGGCaCGCGA-GCGGCGgcGGUcGGCg -3'
miRNA:   3'- uuCCG-GCGCUgCGCCGCa-CCGaCCGg -5'
28065 3' -64.4 NC_005887.1 + 32426 0.66 0.214008
Target:  5'- -cGGCgGCGAUGUGGCc-GGC-GGCg -3'
miRNA:   3'- uuCCGgCGCUGCGCCGcaCCGaCCGg -5'
28065 3' -64.4 NC_005887.1 + 41795 0.66 0.210743
Target:  5'- -cGGCgGUcuucgcgcuguauccGGCGCGGCGcgcGGC-GGCCg -3'
miRNA:   3'- uuCCGgCG---------------CUGCGCCGCa--CCGaCCGG- -5'
28065 3' -64.4 NC_005887.1 + 30434 0.66 0.20859
Target:  5'- cAGGCCGaCGuCGgGGCGgGGCaUGuuGCCg -3'
miRNA:   3'- uUCCGGC-GCuGCgCCGCaCCG-AC--CGG- -5'
28065 3' -64.4 NC_005887.1 + 32339 0.67 0.198108
Target:  5'- -cGGCCGCG-CGUGaUGUGGUcGGCg -3'
miRNA:   3'- uuCCGGCGCuGCGCcGCACCGaCCGg -5'
28065 3' -64.4 NC_005887.1 + 30330 0.67 0.193041
Target:  5'- -cGGuuGCGA-GCGGCGUGcGUgcGCCg -3'
miRNA:   3'- uuCCggCGCUgCGCCGCAC-CGacCGG- -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.