miRNA display CGI


Results 1 - 20 of 43 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
20411 3' -53 NC_004688.1 + 4798 1.13 0.002083
Target:  5'- cCGAAAAGGAUCAGGCCGGCCAACUCCa -3'
miRNA:   3'- -GCUUUUCCUAGUCCGGCCGGUUGAGG- -5'
20411 3' -53 NC_004688.1 + 23151 0.75 0.529158
Target:  5'- aGAGAGGGAUUggaGGGCCucGGCgAACUUCu -3'
miRNA:   3'- gCUUUUCCUAG---UCCGG--CCGgUUGAGG- -5'
20411 3' -53 NC_004688.1 + 62777 0.75 0.529158
Target:  5'- gCGggGAGGAaccgacacUCGGcuagaacaaGCCGGCuCGACUCCc -3'
miRNA:   3'- -GCuuUUCCU--------AGUC---------CGGCCG-GUUGAGG- -5'
20411 3' -53 NC_004688.1 + 54078 0.73 0.644693
Target:  5'- gGAGGAGcGUCAGGCCcucaaagcGGCCcauCUCCg -3'
miRNA:   3'- gCUUUUCcUAGUCCGG--------CCGGuu-GAGG- -5'
20411 3' -53 NC_004688.1 + 3416 0.71 0.748696
Target:  5'- aGguGAGGGUUAGGUCGGCa---UCCu -3'
miRNA:   3'- gCuuUUCCUAGUCCGGCCGguugAGG- -5'
20411 3' -53 NC_004688.1 + 33949 0.7 0.787784
Target:  5'- -----cGGGUCGGGCCGGaagaacacCCAGCcgCCa -3'
miRNA:   3'- gcuuuuCCUAGUCCGGCC--------GGUUGa-GG- -5'
20411 3' -53 NC_004688.1 + 64927 0.7 0.803703
Target:  5'- gGAAGuucgGGGcGUCgAGGCCGGUCAuugcucagccaccaGCUCCu -3'
miRNA:   3'- gCUUU----UCC-UAG-UCCGGCCGGU--------------UGAGG- -5'
20411 3' -53 NC_004688.1 + 6522 0.7 0.815552
Target:  5'- gCGGuAGAGGAUCAGggcgcgagcGCCGGCgAGgUCUg -3'
miRNA:   3'- -GCU-UUUCCUAGUC---------CGGCCGgUUgAGG- -5'
20411 3' -53 NC_004688.1 + 101400 0.69 0.858135
Target:  5'- aCGcAGAGGGAUCGGuG-CGGCCcuacGCUCUg -3'
miRNA:   3'- -GC-UUUUCCUAGUC-CgGCCGGu---UGAGG- -5'
20411 3' -53 NC_004688.1 + 9062 0.68 0.871409
Target:  5'- cCGGAAGGGAgcgCAGGCCgacgcugguggucgGGUUGGCgCCg -3'
miRNA:   3'- -GCUUUUCCUa--GUCCGG--------------CCGGUUGaGG- -5'
20411 3' -53 NC_004688.1 + 86586 0.68 0.873682
Target:  5'- -----cGGGUacCGGaGCCacGGCCAGCUCCa -3'
miRNA:   3'- gcuuuuCCUA--GUC-CGG--CCGGUUGAGG- -5'
20411 3' -53 NC_004688.1 + 55907 0.68 0.88111
Target:  5'- cCGAGcauGAGGuugCAGGCCGGgCAuaaaaUCCc -3'
miRNA:   3'- -GCUU---UUCCua-GUCCGGCCgGUug---AGG- -5'
20411 3' -53 NC_004688.1 + 59163 0.68 0.888299
Target:  5'- gCGAcGAGGAagacgacgggCAGGCUGGCUAGgUuCCg -3'
miRNA:   3'- -GCUuUUCCUa---------GUCCGGCCGGUUgA-GG- -5'
20411 3' -53 NC_004688.1 + 99841 0.68 0.895245
Target:  5'- gCGAcc-GGAUCGGGCaaGuCCAGCUUCa -3'
miRNA:   3'- -GCUuuuCCUAGUCCGgcC-GGUUGAGG- -5'
20411 3' -53 NC_004688.1 + 101732 0.68 0.901944
Target:  5'- gCGAGcaguuuGGA-CAGGCgCGGUCAACUUUg -3'
miRNA:   3'- -GCUUuu----CCUaGUCCG-GCCGGUUGAGG- -5'
20411 3' -53 NC_004688.1 + 56478 0.68 0.901944
Target:  5'- ----cAGGGUCAGGgCGcGCCGgcgaaGCUCUa -3'
miRNA:   3'- gcuuuUCCUAGUCCgGC-CGGU-----UGAGG- -5'
20411 3' -53 NC_004688.1 + 75593 0.67 0.908392
Target:  5'- gCGAcgGGGuGUC-GGCCGccGCgGACUCCu -3'
miRNA:   3'- -GCUuuUCC-UAGuCCGGC--CGgUUGAGG- -5'
20411 3' -53 NC_004688.1 + 11178 0.67 0.908392
Target:  5'- ----cAGGGUCGGGUCGGUCAcgaCCg -3'
miRNA:   3'- gcuuuUCCUAGUCCGGCCGGUugaGG- -5'
20411 3' -53 NC_004688.1 + 60001 0.67 0.908392
Target:  5'- uCGAAGAGGAU---GCCcaGCCAGCUCg -3'
miRNA:   3'- -GCUUUUCCUAgucCGGc-CGGUUGAGg -5'
20411 3' -53 NC_004688.1 + 98798 0.67 0.908392
Target:  5'- gCGggGGGcGGgccagCGGGCUGGCUGACgcgCUg -3'
miRNA:   3'- -GCuuUUC-CUa----GUCCGGCCGGUUGa--GG- -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.