miRNA display CGI


Results 1 - 16 of 16 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
28034 5' -57.8 NC_005887.1 + 31915 0.66 0.503728
Target:  5'- --gGUGcACUGCGCCGUCgGUCagaCCGCg -3'
miRNA:   3'- cagCAU-UGGCGCGGCGGaCAGa--GGUG- -5'
28034 5' -57.8 NC_005887.1 + 39468 0.66 0.493316
Target:  5'- -aCGUGuCCGuCGUCGCCUGcgcguuaUCCACc -3'
miRNA:   3'- caGCAUuGGC-GCGGCGGACag-----AGGUG- -5'
28034 5' -57.8 NC_005887.1 + 28120 0.66 0.487117
Target:  5'- aUCGgauGCCgcgccgaacagcgcgGCGCCGcCCUGUCcgaggCCGCg -3'
miRNA:   3'- cAGCau-UGG---------------CGCGGC-GGACAGa----GGUG- -5'
28034 5' -57.8 NC_005887.1 + 36290 0.66 0.483004
Target:  5'- uUCGUuggugaguGCCGCGCCGCUg----CCACc -3'
miRNA:   3'- cAGCAu-------UGGCGCGGCGGacagaGGUG- -5'
28034 5' -57.8 NC_005887.1 + 41457 0.66 0.483004
Target:  5'- aUCGaAGCCGagGCCGCCUGaCUCguCc -3'
miRNA:   3'- cAGCaUUGGCg-CGGCGGACaGAGguG- -5'
28034 5' -57.8 NC_005887.1 + 3238 0.66 0.4627
Target:  5'- uUCGauucGACCGCGCCGCUcGcgCUgCGCa -3'
miRNA:   3'- cAGCa---UUGGCGCGGCGGaCa-GAgGUG- -5'
28034 5' -57.8 NC_005887.1 + 14495 0.67 0.452717
Target:  5'- aUCGUGcccGCCGCGgUGCUUGguggUCCGCu -3'
miRNA:   3'- cAGCAU---UGGCGCgGCGGACag--AGGUG- -5'
28034 5' -57.8 NC_005887.1 + 12961 0.67 0.452717
Target:  5'- aUCGcGACCGCGCCGCaUGgg-CCGa -3'
miRNA:   3'- cAGCaUUGGCGCGGCGgACagaGGUg -5'
28034 5' -57.8 NC_005887.1 + 40357 0.67 0.442853
Target:  5'- cGUCGagcgcGGCCGUGCCGCUcGUCg-CGCg -3'
miRNA:   3'- -CAGCa----UUGGCGCGGCGGaCAGagGUG- -5'
28034 5' -57.8 NC_005887.1 + 874 0.67 0.408379
Target:  5'- -gCGUGGcCCGCGCCGCCggacgagucaggcgGcCUCgGCu -3'
miRNA:   3'- caGCAUU-GGCGCGGCGGa-------------CaGAGgUG- -5'
28034 5' -57.8 NC_005887.1 + 39641 0.67 0.404653
Target:  5'- cGUCGUcgcgcggcucGGCCGCuuGCCGCCcGUacgCUUCACg -3'
miRNA:   3'- -CAGCA----------UUGGCG--CGGCGGaCA---GAGGUG- -5'
28034 5' -57.8 NC_005887.1 + 8525 0.67 0.404653
Target:  5'- uUCGaucGCCGCGCCGaCCUGacacCCGCg -3'
miRNA:   3'- cAGCau-UGGCGCGGC-GGACaga-GGUG- -5'
28034 5' -57.8 NC_005887.1 + 6934 0.68 0.395433
Target:  5'- cUCGgcaugGGCCGCGCCGUCUGgua-CAUg -3'
miRNA:   3'- cAGCa----UUGGCGCGGCGGACagagGUG- -5'
28034 5' -57.8 NC_005887.1 + 34889 0.68 0.386349
Target:  5'- uGUCGU--UCGCGCUGCCcuUCUCgACg -3'
miRNA:   3'- -CAGCAuuGGCGCGGCGGacAGAGgUG- -5'
28034 5' -57.8 NC_005887.1 + 5133 0.7 0.295842
Target:  5'- cUCGgcaUGACCGCGCUGCCcgacGUCggcgcgCCGCu -3'
miRNA:   3'- cAGC---AUUGGCGCGGCGGa---CAGa-----GGUG- -5'
28034 5' -57.8 NC_005887.1 + 23150 1.1 0.000327
Target:  5'- cGUCGUAACCGCGCCGCCUGUCUCCACg -3'
miRNA:   3'- -CAGCAUUGGCGCGGCGGACAGAGGUG- -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.