miRNA display CGI


Results 1 - 20 of 28 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
29177 3' -57.8 NC_006150.1 + 110729 0.66 0.907446
Target:  5'- gGACAUCGGuUCGU--CCGCGGGCGu-- -3'
miRNA:   3'- -CUGUAGCC-GGCGguGGUGCCUGCuuu -5'
29177 3' -57.8 NC_006150.1 + 48308 0.66 0.901388
Target:  5'- cGACAUCGGCCuCCGUUuuGGGCGGu- -3'
miRNA:   3'- -CUGUAGCCGGcGGUGGugCCUGCUuu -5'
29177 3' -57.8 NC_006150.1 + 130019 0.66 0.901388
Target:  5'- uGACGUCGGUCaCgGCCGCgGGACa--- -3'
miRNA:   3'- -CUGUAGCCGGcGgUGGUG-CCUGcuuu -5'
29177 3' -57.8 NC_006150.1 + 130668 0.66 0.901388
Target:  5'- aACGUCugaggGGCgcagGCUGCCACGGGCGAc- -3'
miRNA:   3'- cUGUAG-----CCGg---CGGUGGUGCCUGCUuu -5'
29177 3' -57.8 NC_006150.1 + 140726 0.66 0.89511
Target:  5'- uGACcuuGUCGacgauCCGCUcgaucuuaGCCGCGGACGAGAg -3'
miRNA:   3'- -CUG---UAGCc----GGCGG--------UGGUGCCUGCUUU- -5'
29177 3' -57.8 NC_006150.1 + 117058 0.66 0.89511
Target:  5'- cGGCGUCcauGGCCGCCAUgcggggCACGucCGAAAc -3'
miRNA:   3'- -CUGUAG---CCGGCGGUG------GUGCcuGCUUU- -5'
29177 3' -57.8 NC_006150.1 + 102307 0.66 0.888616
Target:  5'- uGCggCGGuuGCCGCgGCGG-CGAc- -3'
miRNA:   3'- cUGuaGCCggCGGUGgUGCCuGCUuu -5'
29177 3' -57.8 NC_006150.1 + 71038 0.66 0.881909
Target:  5'- -cCGUUGGCCGCCGCCuuuuUGGcACaGAGu -3'
miRNA:   3'- cuGUAGCCGGCGGUGGu---GCC-UG-CUUu -5'
29177 3' -57.8 NC_006150.1 + 171802 0.66 0.874993
Target:  5'- aGCcaaGGCUGCCAUCAUGGACa--- -3'
miRNA:   3'- cUGuagCCGGCGGUGGUGCCUGcuuu -5'
29177 3' -57.8 NC_006150.1 + 23310 0.67 0.860553
Target:  5'- -cCAggGGCCGCCuCCAaGGGCGAu- -3'
miRNA:   3'- cuGUagCCGGCGGuGGUgCCUGCUuu -5'
29177 3' -57.8 NC_006150.1 + 120781 0.67 0.860553
Target:  5'- cGCAgCGGCaCGCCACUAguCGG-CGAAAg -3'
miRNA:   3'- cUGUaGCCG-GCGGUGGU--GCCuGCUUU- -5'
29177 3' -57.8 NC_006150.1 + 54520 0.67 0.858318
Target:  5'- aACAUCGGCaCGCUccaucucagagagaAUCAUGGAUGAu- -3'
miRNA:   3'- cUGUAGCCG-GCGG--------------UGGUGCCUGCUuu -5'
29177 3' -57.8 NC_006150.1 + 297 0.67 0.853038
Target:  5'- -cCGUCGuGCCGagGCCGCGGAgGAc- -3'
miRNA:   3'- cuGUAGC-CGGCggUGGUGCCUgCUuu -5'
29177 3' -57.8 NC_006150.1 + 83297 0.67 0.836652
Target:  5'- uGACGcCGGCCGCCuuaagauccuucaGgCGCaGGGCGAAAu -3'
miRNA:   3'- -CUGUaGCCGGCGG-------------UgGUG-CCUGCUUU- -5'
29177 3' -57.8 NC_006150.1 + 2223 0.67 0.829389
Target:  5'- aGGCGagGGCCGUgGCCGCcgaGGAgGAAGa -3'
miRNA:   3'- -CUGUagCCGGCGgUGGUG---CCUgCUUU- -5'
29177 3' -57.8 NC_006150.1 + 114472 0.68 0.821159
Target:  5'- aGACAuggcUCGGCCGCC-CU-CGGAgGAGu -3'
miRNA:   3'- -CUGU----AGCCGGCGGuGGuGCCUgCUUu -5'
29177 3' -57.8 NC_006150.1 + 26925 0.68 0.812767
Target:  5'- aGACGUCuGCCGCCuccuuCCAUGcaGAUGAGAu -3'
miRNA:   3'- -CUGUAGcCGGCGGu----GGUGC--CUGCUUU- -5'
29177 3' -57.8 NC_006150.1 + 88706 0.68 0.804221
Target:  5'- cGACGUCGGagCGCUagggcgGCC-CGGACGAc- -3'
miRNA:   3'- -CUGUAGCCg-GCGG------UGGuGCCUGCUuu -5'
29177 3' -57.8 NC_006150.1 + 114077 0.68 0.804221
Target:  5'- aGGCAcCaGCUGCCGCUGCGG-CGGAAa -3'
miRNA:   3'- -CUGUaGcCGGCGGUGGUGCCuGCUUU- -5'
29177 3' -57.8 NC_006150.1 + 47928 0.68 0.804221
Target:  5'- gGACG-CGGCCGCCGUCGCcGAUGAu- -3'
miRNA:   3'- -CUGUaGCCGGCGGUGGUGcCUGCUuu -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.