miRNA display CGI


Results 1 - 20 of 53 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
12795 3' -54.3 NC_003387.1 + 13420 0.66 0.751447
Target:  5'- cUCGCCGuuGuCGGCCGggGGcuugccgucGUCGAg -3'
miRNA:   3'- cAGCGGCugC-GCCGGCuuUUu--------CAGUU- -5'
12795 3' -54.3 NC_003387.1 + 42714 0.66 0.751447
Target:  5'- cGUCGUCGuCGCccGGCCGcgGGAAcgGGUCGGg -3'
miRNA:   3'- -CAGCGGCuGCG--CCGGC--UUUU--UCAGUU- -5'
12795 3' -54.3 NC_003387.1 + 5449 0.66 0.751447
Target:  5'- -gCGCCGACgGCGGCCaAAGcGGUg-- -3'
miRNA:   3'- caGCGGCUG-CGCCGGcUUUuUCAguu -5'
12795 3' -54.3 NC_003387.1 + 35954 0.66 0.740834
Target:  5'- -aCGCCGcgaaggcCGCGGUCGAGGAGGcccUCGg -3'
miRNA:   3'- caGCGGCu------GCGCCGGCUUUUUC---AGUu -5'
12795 3' -54.3 NC_003387.1 + 30214 0.66 0.730108
Target:  5'- -aCGCCGACGuCGagcgcgccGCCGAGGccGUCGc -3'
miRNA:   3'- caGCGGCUGC-GC--------CGGCUUUuuCAGUu -5'
12795 3' -54.3 NC_003387.1 + 39763 0.66 0.730108
Target:  5'- cUCGCCGACGCGGUgCGc--AAGcgCAAc -3'
miRNA:   3'- cAGCGGCUGCGCCG-GCuuuUUCa-GUU- -5'
12795 3' -54.3 NC_003387.1 + 6137 0.66 0.730108
Target:  5'- -gUGCUGGCGacccugcccgaGGCCGAuuGGGUCGGu -3'
miRNA:   3'- caGCGGCUGCg----------CCGGCUuuUUCAGUU- -5'
12795 3' -54.3 NC_003387.1 + 5149 0.66 0.719279
Target:  5'- -gCGCuCGGCGcCGGUCGGugcAGUCAAu -3'
miRNA:   3'- caGCG-GCUGC-GCCGGCUuuuUCAGUU- -5'
12795 3' -54.3 NC_003387.1 + 452 0.66 0.719279
Target:  5'- uGUCGCCGccGCgGCGGCCGAc--GG-CGAc -3'
miRNA:   3'- -CAGCGGC--UG-CGCCGGCUuuuUCaGUU- -5'
12795 3' -54.3 NC_003387.1 + 7855 0.66 0.718191
Target:  5'- aUCGCCGACGCccccgacggcuacGGCacCGAccuuGAGGUCGg -3'
miRNA:   3'- cAGCGGCUGCG-------------CCG--GCUu---UUUCAGUu -5'
12795 3' -54.3 NC_003387.1 + 19155 0.66 0.708361
Target:  5'- cUCGUCGACGCuGUCGAGGGcgcggcccgcacGGUCGc -3'
miRNA:   3'- cAGCGGCUGCGcCGGCUUUU------------UCAGUu -5'
12795 3' -54.3 NC_003387.1 + 21683 0.67 0.697365
Target:  5'- uUCGCCGACGCccuGGCCGccucGG-CGAg -3'
miRNA:   3'- cAGCGGCUGCG---CCGGCuuuuUCaGUU- -5'
12795 3' -54.3 NC_003387.1 + 34718 0.67 0.697365
Target:  5'- --gGCgCGACcUGGCCGAGcuGGUCAAg -3'
miRNA:   3'- cagCG-GCUGcGCCGGCUUuuUCAGUU- -5'
12795 3' -54.3 NC_003387.1 + 45571 0.67 0.697365
Target:  5'- cUCGUCGGCaCGGCCG-AGGAGcCGGg -3'
miRNA:   3'- cAGCGGCUGcGCCGGCuUUUUCaGUU- -5'
12795 3' -54.3 NC_003387.1 + 40505 0.67 0.697365
Target:  5'- -aCGCCGGgGCacGCCGGGAAuGUCGGg -3'
miRNA:   3'- caGCGGCUgCGc-CGGCUUUUuCAGUU- -5'
12795 3' -54.3 NC_003387.1 + 52535 0.67 0.686304
Target:  5'- -cCGCCGAgcugGCGGCCGGGc--GUCAc -3'
miRNA:   3'- caGCGGCUg---CGCCGGCUUuuuCAGUu -5'
12795 3' -54.3 NC_003387.1 + 987 0.67 0.686304
Target:  5'- -cCGCCGAgGC-GCCGAccGGGGUCGGa -3'
miRNA:   3'- caGCGGCUgCGcCGGCUu-UUUCAGUU- -5'
12795 3' -54.3 NC_003387.1 + 13139 0.67 0.675189
Target:  5'- cUCGCUGguGCGCagcgcgaacaGGCCGucGAGGUCAGg -3'
miRNA:   3'- cAGCGGC--UGCG----------CCGGCuuUUUCAGUU- -5'
12795 3' -54.3 NC_003387.1 + 29237 0.67 0.664032
Target:  5'- -gCGCaCGAUccCGGCCGAcAAGGUCGAg -3'
miRNA:   3'- caGCG-GCUGc-GCCGGCUuUUUCAGUU- -5'
12795 3' -54.3 NC_003387.1 + 44373 0.67 0.664032
Target:  5'- -aUGCCGAacaGCGGCaCGucGGGGUCGu -3'
miRNA:   3'- caGCGGCUg--CGCCG-GCuuUUUCAGUu -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.