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
14677 3' -59.4 NC_003525.1 + 57987 0.66 0.526175
Target:  5'- aGGC-GCUGGCAuGGGUGGCgaaGAAcaucagaguGCCa -3'
miRNA:   3'- gCCGuUGGUCGU-CCCGCCGa--CUU---------CGG- -5'
14677 3' -59.4 NC_003525.1 + 39713 0.66 0.485664
Target:  5'- -uGCAauauGCCAuuGCAGGGUGGcCUGuuGCUg -3'
miRNA:   3'- gcCGU----UGGU--CGUCCCGCC-GACuuCGG- -5'
14677 3' -59.4 NC_003525.1 + 19548 0.67 0.46597
Target:  5'- aGGCAACCGGUAaGGCuGUcagUGAugguGCCa -3'
miRNA:   3'- gCCGUUGGUCGUcCCGcCG---ACUu---CGG- -5'
14677 3' -59.4 NC_003525.1 + 26249 0.67 0.45628
Target:  5'- cCGGUuugucacGCCAGCA-GGCGGCgucucuuGCCa -3'
miRNA:   3'- -GCCGu------UGGUCGUcCCGCCGacuu---CGG- -5'
14677 3' -59.4 NC_003525.1 + 15168 0.67 0.45628
Target:  5'- cCGGCAgcuucuGCCAGaacggauauCAGGGCGaauuaCUGGAGUCu -3'
miRNA:   3'- -GCCGU------UGGUC---------GUCCCGCc----GACUUCGG- -5'
14677 3' -59.4 NC_003525.1 + 56207 0.67 0.427879
Target:  5'- uGGuCAGCCAGUGGcGGCagGGCaGAAGUg -3'
miRNA:   3'- gCC-GUUGGUCGUC-CCG--CCGaCUUCGg -5'
14677 3' -59.4 NC_003525.1 + 38016 0.68 0.418646
Target:  5'- cCGGUgcaaaccucAGCCAGCAGGGUGug-GAAGUa -3'
miRNA:   3'- -GCCG---------UUGGUCGUCCCGCcgaCUUCGg -5'
14677 3' -59.4 NC_003525.1 + 20237 0.68 0.41773
Target:  5'- gGGCGAUUAaugcggcGCAGGGCGGCUauucacGCUa -3'
miRNA:   3'- gCCGUUGGU-------CGUCCCGCCGAcuu---CGG- -5'
14677 3' -59.4 NC_003525.1 + 21584 0.68 0.38296
Target:  5'- uGGCGACCAGCGGcGuuuucCGGUgccGGAGCUu -3'
miRNA:   3'- gCCGUUGGUCGUC-Cc----GCCGa--CUUCGG- -5'
14677 3' -59.4 NC_003525.1 + 9519 0.73 0.192017
Target:  5'- aCGGgGACCGGCAGGuGauGCUGGuccggcaGGCCc -3'
miRNA:   3'- -GCCgUUGGUCGUCC-CgcCGACU-------UCGG- -5'
14677 3' -59.4 NC_003525.1 + 6920 0.73 0.187553
Target:  5'- aCGGCAcACCAaCGacuGGCGGCUGAAuGCCa -3'
miRNA:   3'- -GCCGU-UGGUcGUc--CCGCCGACUU-CGG- -5'
14677 3' -59.4 NC_003525.1 + 49020 0.73 0.17796
Target:  5'- gGGCAGggcgUCAGaAGGGCGGCaUGAGGCg -3'
miRNA:   3'- gCCGUU----GGUCgUCCCGCCG-ACUUCGg -5'
14677 3' -59.4 NC_003525.1 + 9439 0.75 0.147742
Target:  5'- aCGG-GGCCAGCAGGucCGGCUG-GGCCg -3'
miRNA:   3'- -GCCgUUGGUCGUCCc-GCCGACuUCGG- -5'
14677 3' -59.4 NC_003525.1 + 28414 0.76 0.118981
Target:  5'- uGGCGcuuuuGCaCAGCAGGGCGGUuuccaagggccUGAAGCa -3'
miRNA:   3'- gCCGU-----UG-GUCGUCCCGCCG-----------ACUUCGg -5'
14677 3' -59.4 NC_003525.1 + 19461 0.77 0.106638
Target:  5'- cCGGUGG-CAGCAGGGgGGCUGAugaGGUCa -3'
miRNA:   3'- -GCCGUUgGUCGUCCCgCCGACU---UCGG- -5'
14677 3' -59.4 NC_003525.1 + 8402 1.12 0.000237
Target:  5'- aCGGCAACCAGCAGGGCGGCUGAAGCCg -3'
miRNA:   3'- -GCCGUUGGUCGUCCCGCCGACUUCGG- -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.