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
28116 3' -57.7 NC_005887.1 + 1673 0.66 0.581727
Target:  5'- aUGACAGGUagugCGUugG-CGGUUCGa -3'
miRNA:   3'- gGCUGUCCGgug-GCGugCaGCCAAGC- -5'
28116 3' -57.7 NC_005887.1 + 21871 0.69 0.40123
Target:  5'- cCCGGCAGcGCCGCgG-ACGUCGuGUUg- -3'
miRNA:   3'- -GGCUGUC-CGGUGgCgUGCAGC-CAAgc -5'
28116 3' -57.7 NC_005887.1 + 18995 0.7 0.333146
Target:  5'- gCCGAC-GGCCGCUGCGagauUCGGUgagCGc -3'
miRNA:   3'- -GGCUGuCCGGUGGCGUgc--AGCCAa--GC- -5'
28116 3' -57.7 NC_005887.1 + 22140 0.75 0.162704
Target:  5'- cCCGAC-GGCCGCCGUGCugguuGUgGGUUCa -3'
miRNA:   3'- -GGCUGuCCGGUGGCGUG-----CAgCCAAGc -5'
28116 3' -57.7 NC_005887.1 + 9106 0.66 0.560337
Target:  5'- gCCGcgaACGGGCCGCCGacaaACGUcaCGGg--- -3'
miRNA:   3'- -GGC---UGUCCGGUGGCg---UGCA--GCCaagc -5'
28116 3' -57.7 NC_005887.1 + 13041 0.66 0.560337
Target:  5'- gCCG-CGGGUCGCCGCu--UCGGUcUGg -3'
miRNA:   3'- -GGCuGUCCGGUGGCGugcAGCCAaGC- -5'
28116 3' -57.7 NC_005887.1 + 12510 0.66 0.527643
Target:  5'- aCCGuACAGGCUcggguccaucgcgAUCGCGCGcgcgCGGUgUCGu -3'
miRNA:   3'- -GGC-UGUCCGG-------------UGGCGUGCa---GCCA-AGC- -5'
28116 3' -57.7 NC_005887.1 + 17023 0.67 0.507957
Target:  5'- gCCGACAuuGCCGCC-CGCG-CGGUUg- -3'
miRNA:   3'- -GGCUGUc-CGGUGGcGUGCaGCCAAgc -5'
28116 3' -57.7 NC_005887.1 + 16791 0.67 0.477535
Target:  5'- uCCGACuugaucgcgccGGCCGuCaCGUACGUCuGUUCGa -3'
miRNA:   3'- -GGCUGu----------CCGGU-G-GCGUGCAGcCAAGC- -5'
28116 3' -57.7 NC_005887.1 + 10507 0.68 0.410343
Target:  5'- gCGAUGGGUgCACUGCGCcGUCGG-UCa -3'
miRNA:   3'- gGCUGUCCG-GUGGCGUG-CAGCCaAGc -5'
28116 3' -57.7 NC_005887.1 + 24938 0.68 0.457761
Target:  5'- gCGGCAucGGCCGCCGcCugGaCGGUg-- -3'
miRNA:   3'- gGCUGU--CCGGUGGC-GugCaGCCAagc -5'
28116 3' -57.7 NC_005887.1 + 13732 0.67 0.487579
Target:  5'- cCCGuCGcGCCGCUgaucgcguucuGCACGUCGGUgcugcUCGg -3'
miRNA:   3'- -GGCuGUcCGGUGG-----------CGUGCAGCCA-----AGC- -5'
28116 3' -57.7 NC_005887.1 + 4094 0.66 0.581727
Target:  5'- gUCGuuCAGGCCACCccaauucaGCGCGcCGGaaCGc -3'
miRNA:   3'- -GGCu-GUCCGGUGG--------CGUGCaGCCaaGC- -5'
28116 3' -57.7 NC_005887.1 + 10782 0.68 0.44804
Target:  5'- aUCGaACAGcGgCACCGCGCGguccaUCGcGUUCGa -3'
miRNA:   3'- -GGC-UGUC-CgGUGGCGUGC-----AGC-CAAGC- -5'
28116 3' -57.7 NC_005887.1 + 36573 0.66 0.571008
Target:  5'- cCCGAUgcugcGGUCgACCGCACGguucCGGUgaUCGc -3'
miRNA:   3'- -GGCUGu----CCGG-UGGCGUGCa---GCCA--AGC- -5'
28116 3' -57.7 NC_005887.1 + 1549 0.67 0.507957
Target:  5'- gCCGcGCgAGcGCCGCaCGC-CGUCGGcgUCGg -3'
miRNA:   3'- -GGC-UG-UC-CGGUG-GCGuGCAGCCa-AGC- -5'
28116 3' -57.7 NC_005887.1 + 41664 0.68 0.435575
Target:  5'- gCCGGCcgccgcaccuGGGCCGCCGCugGccgacaggaacgucUCGGcgCu -3'
miRNA:   3'- -GGCUG----------UCCGGUGGCGugC--------------AGCCaaGc -5'
28116 3' -57.7 NC_005887.1 + 5113 0.7 0.349346
Target:  5'- uCCGGCGcGGCCAUUGCcgugccuuCGUUGGcUUCGg -3'
miRNA:   3'- -GGCUGU-CCGGUGGCGu-------GCAGCC-AAGC- -5'
28116 3' -57.7 NC_005887.1 + 25076 0.66 0.571008
Target:  5'- gCCGGC-GGCCGCCGgCGCGagcugacgcUCGGc--- -3'
miRNA:   3'- -GGCUGuCCGGUGGC-GUGC---------AGCCaagc -5'
28116 3' -57.7 NC_005887.1 + 3949 0.66 0.543382
Target:  5'- uCCGGCAuggcgucguaugccgGGCUGCCGCcguacacauCGUCGGUgcCGa -3'
miRNA:   3'- -GGCUGU---------------CCGGUGGCGu--------GCAGCCAa-GC- -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.