miRNA display CGI


Results 1 - 20 of 56 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
28130 3' -60.4 NC_005887.1 + 12932 1.12 0.000136
Target:  5'- gCGAGCGCGUCCCUGCCGCAGCAAGCCg -3'
miRNA:   3'- -GCUCGCGCAGGGACGGCGUCGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 12135 0.75 0.086443
Target:  5'- cCGAGCGaCGUgccgaCCUGCUGCAGCGcggcGCCu -3'
miRNA:   3'- -GCUCGC-GCAg----GGACGGCGUCGUu---CGG- -5'
28130 3' -60.4 NC_005887.1 + 30997 0.74 0.099496
Target:  5'- gGGGUGCGUCUCUcGCguggCGCGGCGcaGGCCa -3'
miRNA:   3'- gCUCGCGCAGGGA-CG----GCGUCGU--UCGG- -5'
28130 3' -60.4 NC_005887.1 + 15911 0.72 0.13839
Target:  5'- gCGGGCGUuUCCCUcgaucgcGCCGC-GCAAGCg -3'
miRNA:   3'- -GCUCGCGcAGGGA-------CGGCGuCGUUCGg -5'
28130 3' -60.4 NC_005887.1 + 5587 0.72 0.13877
Target:  5'- --cGUGCGUgCCUGCUGCGGCcggugcugcGGCCg -3'
miRNA:   3'- gcuCGCGCAgGGACGGCGUCGu--------UCGG- -5'
28130 3' -60.4 NC_005887.1 + 41291 0.72 0.13877
Target:  5'- aCGGGCGCGcUgCUGCCGCcgGGCAAGg- -3'
miRNA:   3'- -GCUCGCGCaGgGACGGCG--UCGUUCgg -5'
28130 3' -60.4 NC_005887.1 + 16267 0.72 0.159009
Target:  5'- --uGCGUGUCCg-GUCGCAGCGcGGCCu -3'
miRNA:   3'- gcuCGCGCAGGgaCGGCGUCGU-UCGG- -5'
28130 3' -60.4 NC_005887.1 + 5491 0.72 0.159009
Target:  5'- -uGGCGCagcaCCgGCCGCAGCAccGGCCg -3'
miRNA:   3'- gcUCGCGcag-GGaCGGCGUCGU--UCGG- -5'
28130 3' -60.4 NC_005887.1 + 40359 0.71 0.163365
Target:  5'- uCGAGCGCGgCCgUGCCGCucgucGCGcGCg -3'
miRNA:   3'- -GCUCGCGCaGGgACGGCGu----CGUuCGg -5'
28130 3' -60.4 NC_005887.1 + 31122 0.71 0.163365
Target:  5'- aGAGCaggGCGagCUUGCCG-GGCAGGCCg -3'
miRNA:   3'- gCUCG---CGCagGGACGGCgUCGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 11787 0.7 0.191811
Target:  5'- uCGuGCGCG-CCgUGCgCGCGGCgAAGCg -3'
miRNA:   3'- -GCuCGCGCaGGgACG-GCGUCG-UUCGg -5'
28130 3' -60.4 NC_005887.1 + 26842 0.7 0.207606
Target:  5'- gCGGGCGCGUC--UGCCGgUAGCcguuGCCg -3'
miRNA:   3'- -GCUCGCGCAGggACGGC-GUCGuu--CGG- -5'
28130 3' -60.4 NC_005887.1 + 17486 0.7 0.210896
Target:  5'- aCGAGCGCGauguucuUCgCCUGCCGCcgacgugaucgaccAGCGcguucaacagcgAGCCc -3'
miRNA:   3'- -GCUCGCGC-------AG-GGACGGCG--------------UCGU------------UCGG- -5'
28130 3' -60.4 NC_005887.1 + 13554 0.69 0.230401
Target:  5'- -cGGCGaugCgCUGCCGCccgAGCAGGCCg -3'
miRNA:   3'- gcUCGCgcaGgGACGGCG---UCGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 39110 0.69 0.242571
Target:  5'- aCGAcGCcauguCGUUCgCUGacuCCGCAGCAAGCCg -3'
miRNA:   3'- -GCU-CGc----GCAGG-GAC---GGCGUCGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 40605 0.69 0.248855
Target:  5'- gCGAGCGCcagaccgucGUCgCUGCCGC-GC--GCCg -3'
miRNA:   3'- -GCUCGCG---------CAGgGACGGCGuCGuuCGG- -5'
28130 3' -60.4 NC_005887.1 + 33933 0.68 0.261824
Target:  5'- gGAGCGCuGUCggCUGCCGCAGgCucguacGCCc -3'
miRNA:   3'- gCUCGCG-CAGg-GACGGCGUC-Guu----CGG- -5'
28130 3' -60.4 NC_005887.1 + 37443 0.68 0.261824
Target:  5'- gGAGCGCGgCgCUUGCCugcgcgguuuGCAGUgcGCCg -3'
miRNA:   3'- gCUCGCGCaG-GGACGG----------CGUCGuuCGG- -5'
28130 3' -60.4 NC_005887.1 + 34420 0.68 0.261824
Target:  5'- gGGGCGCucGUCuCCaGCCGUGGCcGGCg -3'
miRNA:   3'- gCUCGCG--CAG-GGaCGGCGUCGuUCGg -5'
28130 3' -60.4 NC_005887.1 + 19499 0.68 0.267838
Target:  5'- aCGAGCcCGUUCC-GCCuuuuucgGCAGCGuGCCg -3'
miRNA:   3'- -GCUCGcGCAGGGaCGG-------CGUCGUuCGG- -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.