miRNA display CGI


Results 1 - 20 of 60 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
9607 3' -62.2 NC_002577.1 + 3622 0.68 0.543205
Target:  5'- -aAGAAguAGCCGGGcGCgaaGCGGCUGgGAu -3'
miRNA:   3'- ggUCUU--UCGGCCC-CG---CGCCGGCgCUu -5'
9607 3' -62.2 NC_002577.1 + 4645 0.68 0.53369
Target:  5'- ---cGAGGCCGGGccGCGCugcagggauGGCCGCGGGu -3'
miRNA:   3'- ggucUUUCGGCCC--CGCG---------CCGGCGCUU- -5'
9607 3' -62.2 NC_002577.1 + 5249 0.67 0.601268
Target:  5'- cUCGGAacGAGUCGGGGaa-GGgCGCGAAa -3'
miRNA:   3'- -GGUCU--UUCGGCCCCgcgCCgGCGCUU- -5'
9607 3' -62.2 NC_002577.1 + 7947 0.7 0.39222
Target:  5'- -gGGGGAGCgCGGaGCGCGGgCGCGGg -3'
miRNA:   3'- ggUCUUUCG-GCCcCGCGCCgGCGCUu -5'
9607 3' -62.2 NC_002577.1 + 7999 0.67 0.601268
Target:  5'- gCAGAAGcGCCGGGGC-CGaauCCGgGAAg -3'
miRNA:   3'- gGUCUUU-CGGCCCCGcGCc--GGCgCUU- -5'
9607 3' -62.2 NC_002577.1 + 8323 0.66 0.620853
Target:  5'- uUAGAGAGCgCGGGcguuucGCGCcGCUGCGGc -3'
miRNA:   3'- gGUCUUUCG-GCCC------CGCGcCGGCGCUu -5'
9607 3' -62.2 NC_002577.1 + 9327 0.74 0.230926
Target:  5'- gCUAGGcuGGcCCGGGGCGCGGaCGCGGu -3'
miRNA:   3'- -GGUCUu-UC-GGCCCCGCGCCgGCGCUu -5'
9607 3' -62.2 NC_002577.1 + 10541 0.74 0.253323
Target:  5'- -gGGAAAGUCGGGGgGCGacCCGCGAc -3'
miRNA:   3'- ggUCUUUCGGCCCCgCGCc-GGCGCUu -5'
9607 3' -62.2 NC_002577.1 + 10689 0.68 0.524235
Target:  5'- uCCGGAc-GCCGcgaGGGuCGCGGCC-CGAAg -3'
miRNA:   3'- -GGUCUuuCGGC---CCC-GCGCCGGcGCUU- -5'
9607 3' -62.2 NC_002577.1 + 11050 0.67 0.578851
Target:  5'- -gAGggGGgCGGcguuucuagcccccGGCGCgGGCCGCGGc -3'
miRNA:   3'- ggUCuuUCgGCC--------------CCGCG-CCGGCGCUu -5'
9607 3' -62.2 NC_002577.1 + 11757 0.71 0.368502
Target:  5'- gCCGGAGGGCgCGgaccGGGCGCGGaCCcggGCGAc -3'
miRNA:   3'- -GGUCUUUCG-GC----CCCGCGCC-GG---CGCUu -5'
9607 3' -62.2 NC_002577.1 + 16502 0.68 0.552776
Target:  5'- --uGAGGGCgGGGGgGuUGGCCGgGAGg -3'
miRNA:   3'- gguCUUUCGgCCCCgC-GCCGGCgCUU- -5'
9607 3' -62.2 NC_002577.1 + 35565 1.07 0.001139
Target:  5'- gCCAGAAAGCCGGGGCGCGGCCGCGAAa -3'
miRNA:   3'- -GGUCUUUCGGCCCCGCGCCGGCGCUU- -5'
9607 3' -62.2 NC_002577.1 + 42425 0.66 0.660063
Target:  5'- aCCGGguAGCgCGcGGGUGacgaCGGCCGCa-- -3'
miRNA:   3'- -GGUCuuUCG-GC-CCCGC----GCCGGCGcuu -5'
9607 3' -62.2 NC_002577.1 + 53695 0.69 0.478011
Target:  5'- gCCGGAcauGUCGGacGUGCGGCCGUGGu -3'
miRNA:   3'- -GGUCUuu-CGGCCc-CGCGCCGGCGCUu -5'
9607 3' -62.2 NC_002577.1 + 58194 0.66 0.650274
Target:  5'- cCCGGAAgaaauugggcGGCCGucuucugGCGGCCGCGAAa -3'
miRNA:   3'- -GGUCUU----------UCGGCcccg---CGCCGGCGCUU- -5'
9607 3' -62.2 NC_002577.1 + 93556 0.68 0.505522
Target:  5'- --cGAGAGUCGcGuGGUGCGGCUGCGc- -3'
miRNA:   3'- gguCUUUCGGC-C-CCGCGCCGGCGCuu -5'
9607 3' -62.2 NC_002577.1 + 105985 0.68 0.505522
Target:  5'- aCCGcGAucaucAGCgCGGGGagagaGCGGCCGCGc- -3'
miRNA:   3'- -GGU-CUu----UCG-GCCCCg----CGCCGGCGCuu -5'
9607 3' -62.2 NC_002577.1 + 121857 0.71 0.368502
Target:  5'- gCCGGAGGGCgCGgaccGGGCGCGGaCCcggGCGAc -3'
miRNA:   3'- -GGUCUUUCG-GC----CCCGCGCC-GG---CGCUu -5'
9607 3' -62.2 NC_002577.1 + 122563 0.67 0.578851
Target:  5'- -gAGggGGgCGGcguuucuagcccccGGCGCgGGCCGCGGc -3'
miRNA:   3'- ggUCuuUCgGCC--------------CCGCG-CCGGCGCUu -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.