miRNA display CGI


Results 1 - 17 of 17 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
28033 3' -54.9 NC_005887.1 + 40012 0.74 0.24979
Target:  5'- aCGucGcGGUGcGCA-UCAUGGCGCGGCu -3'
miRNA:   3'- -GCuuCuCCAC-UGUcAGUACCGCGCCG- -5'
28033 3' -54.9 NC_005887.1 + 5944 0.66 0.677683
Target:  5'- gGgcGAGGUGAUcgauaAGcUCGcUGGCGCguccGGCg -3'
miRNA:   3'- gCuuCUCCACUG-----UC-AGU-ACCGCG----CCG- -5'
28033 3' -54.9 NC_005887.1 + 33696 0.66 0.666544
Target:  5'- cCGGAuuGGUuuu--UCGUGGCGCGGCg -3'
miRNA:   3'- -GCUUcuCCAcugucAGUACCGCGCCG- -5'
28033 3' -54.9 NC_005887.1 + 33823 0.66 0.666544
Target:  5'- ----cGGGUGuCAGguc-GGCGCGGCg -3'
miRNA:   3'- gcuucUCCACuGUCaguaCCGCGCCG- -5'
28033 3' -54.9 NC_005887.1 + 15821 0.66 0.666544
Target:  5'- aCGAGGcgcAGGUG-CAG-CGcuuGCGCGGCg -3'
miRNA:   3'- -GCUUC---UCCACuGUCaGUac-CGCGCCG- -5'
28033 3' -54.9 NC_005887.1 + 28103 0.67 0.609446
Target:  5'- cCGggGcguGcGUGACGGUCugguUGGUggucaagaacagcGCGGCg -3'
miRNA:   3'- -GCuuCu--C-CACUGUCAGu---ACCG-------------CGCCG- -5'
28033 3' -54.9 NC_005887.1 + 38172 0.67 0.599387
Target:  5'- gCGAaauAGGcGGUGuGCAG-CAUGGC-CGGCu -3'
miRNA:   3'- -GCU---UCU-CCAC-UGUCaGUACCGcGCCG- -5'
28033 3' -54.9 NC_005887.1 + 18974 0.67 0.599387
Target:  5'- gCGAAGGGcacgcGGCAG-CAUGGCGCaGUc -3'
miRNA:   3'- -GCUUCUCca---CUGUCaGUACCGCGcCG- -5'
28033 3' -54.9 NC_005887.1 + 10992 0.67 0.599387
Target:  5'- uCGucGAGGaUGGCguGGUgcUcgGGUGCGGCg -3'
miRNA:   3'- -GCuuCUCC-ACUG--UCA--GuaCCGCGCCG- -5'
28033 3' -54.9 NC_005887.1 + 14700 0.68 0.522439
Target:  5'- uCGucGcGGcgGGCGGgCcgGGCGCGGCg -3'
miRNA:   3'- -GCuuCuCCa-CUGUCaGuaCCGCGCCG- -5'
28033 3' -54.9 NC_005887.1 + 30996 0.69 0.459677
Target:  5'- ---cGGGGUG-CGucucucgCGUGGCGCGGCg -3'
miRNA:   3'- gcuuCUCCACuGUca-----GUACCGCGCCG- -5'
28033 3' -54.9 NC_005887.1 + 27530 0.7 0.439652
Target:  5'- -----cGGcgGGCGGUCAUGG-GCGGCg -3'
miRNA:   3'- gcuucuCCa-CUGUCAGUACCgCGCCG- -5'
28033 3' -54.9 NC_005887.1 + 6043 0.7 0.439652
Target:  5'- cCGGguGGugcuGGUGGCAGc---GGCGCGGCa -3'
miRNA:   3'- -GCU--UCu---CCACUGUCaguaCCGCGCCG- -5'
28033 3' -54.9 NC_005887.1 + 22160 0.72 0.338338
Target:  5'- gCGAAGGGcUGACgcgcaaacagaaGGUCGUuucguuucuguccGGCGCGGCg -3'
miRNA:   3'- -GCUUCUCcACUG------------UCAGUA-------------CCGCGCCG- -5'
28033 3' -54.9 NC_005887.1 + 39922 0.68 0.555053
Target:  5'- ---cGAGGUGuCAuUCGUcGGCGCGGg -3'
miRNA:   3'- gcuuCUCCACuGUcAGUA-CCGCGCCg -5'
28033 3' -54.9 NC_005887.1 + 37511 0.75 0.212888
Target:  5'- gGggGAcGUGAucaCGGUCGacugguUGGCGCGGCa -3'
miRNA:   3'- gCuuCUcCACU---GUCAGU------ACCGCGCCG- -5'
28033 3' -54.9 NC_005887.1 + 23335 1.11 0.00061
Target:  5'- uCGAAGAGGUGACAGUCAUGGCGCGGCc -3'
miRNA:   3'- -GCUUCUCCACUGUCAGUACCGCGCCG- -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.