miRNA display CGI


Results 1 - 20 of 22 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
16086 3' -52.8 NC_004065.1 + 161282 0.66 0.994197
Target:  5'- --cGAuGUcCGAGUCCGGCAgcgaccccgucaggaUGCGGUUGu -3'
miRNA:   3'- ggaCU-CA-GCUUAGGCCGU---------------GCGUCAAU- -5'
16086 3' -52.8 NC_004065.1 + 34177 0.66 0.993859
Target:  5'- aCCgUGAGUUGAcggcgCCGGCGC-CAGa-- -3'
miRNA:   3'- -GG-ACUCAGCUua---GGCCGUGcGUCaau -5'
16086 3' -52.8 NC_004065.1 + 42498 0.66 0.993859
Target:  5'- aCCUGGGUCGGGaaCGGUACGa----- -3'
miRNA:   3'- -GGACUCAGCUUagGCCGUGCgucaau -5'
16086 3' -52.8 NC_004065.1 + 101634 0.66 0.993859
Target:  5'- aCCcGGGUCGAAUCCgGGCACc------ -3'
miRNA:   3'- -GGaCUCAGCUUAGG-CCGUGcgucaau -5'
16086 3' -52.8 NC_004065.1 + 119881 0.66 0.992943
Target:  5'- cCCUGAG-CGAGaacuugCCGGCGCGgcCGGa-- -3'
miRNA:   3'- -GGACUCaGCUUa-----GGCCGUGC--GUCaau -5'
16086 3' -52.8 NC_004065.1 + 33258 0.66 0.992943
Target:  5'- gCUGAGguggCGGAUCUugGGCagGCGCAGc-- -3'
miRNA:   3'- gGACUCa---GCUUAGG--CCG--UGCGUCaau -5'
16086 3' -52.8 NC_004065.1 + 164551 0.66 0.992943
Target:  5'- gCUGuGUCGAG-CCGGCG-GCGGc-- -3'
miRNA:   3'- gGACuCAGCUUaGGCCGUgCGUCaau -5'
16086 3' -52.8 NC_004065.1 + 7624 0.66 0.989528
Target:  5'- --cGAauGUCGAcccGUCCacguGGCGCGCAGUUc -3'
miRNA:   3'- ggaCU--CAGCU---UAGG----CCGUGCGUCAAu -5'
16086 3' -52.8 NC_004065.1 + 203103 0.66 0.989528
Target:  5'- uCUUGAGccuucuUCgGggUCCGGCGUGCGGUc- -3'
miRNA:   3'- -GGACUC------AG-CuuAGGCCGUGCGUCAau -5'
16086 3' -52.8 NC_004065.1 + 97231 0.67 0.98814
Target:  5'- uUCgGGGUCGcGUCCGGCGCaCGGc-- -3'
miRNA:   3'- -GGaCUCAGCuUAGGCCGUGcGUCaau -5'
16086 3' -52.8 NC_004065.1 + 125844 0.67 0.983114
Target:  5'- gCUGAcgGUCGuAUCCGGCACcgaaGCGGc-- -3'
miRNA:   3'- gGACU--CAGCuUAGGCCGUG----CGUCaau -5'
16086 3' -52.8 NC_004065.1 + 164648 0.67 0.981124
Target:  5'- ---cAGUCGggUCgCGGCGCGCGu--- -3'
miRNA:   3'- ggacUCAGCuuAG-GCCGUGCGUcaau -5'
16086 3' -52.8 NC_004065.1 + 103058 0.67 0.981124
Target:  5'- aCCUGAGcuUCGAGgcgaucUUCGGCACGUAc--- -3'
miRNA:   3'- -GGACUC--AGCUU------AGGCCGUGCGUcaau -5'
16086 3' -52.8 NC_004065.1 + 76615 0.67 0.978963
Target:  5'- aCCUcGAGUCGAuagaCGGCaACGuCAGUUc -3'
miRNA:   3'- -GGA-CUCAGCUuag-GCCG-UGC-GUCAAu -5'
16086 3' -52.8 NC_004065.1 + 67338 0.69 0.954705
Target:  5'- cCCgccGGUCGAAuggcgcUCCGGaCGCGCGGUc- -3'
miRNA:   3'- -GGac-UCAGCUU------AGGCC-GUGCGUCAau -5'
16086 3' -52.8 NC_004065.1 + 33647 0.69 0.954316
Target:  5'- --cGGGgcgcgcuUCGAccGUCCGGCGCGCGGggAg -3'
miRNA:   3'- ggaCUC-------AGCU--UAGGCCGUGCGUCaaU- -5'
16086 3' -52.8 NC_004065.1 + 173065 0.69 0.950712
Target:  5'- cCCgGAGagGAAUCCGaGCGCuaGCAGUa- -3'
miRNA:   3'- -GGaCUCagCUUAGGC-CGUG--CGUCAau -5'
16086 3' -52.8 NC_004065.1 + 71307 0.69 0.946491
Target:  5'- gCUG-GUCGcacGUCgGGCGCGCAGa-- -3'
miRNA:   3'- gGACuCAGCu--UAGgCCGUGCGUCaau -5'
16086 3' -52.8 NC_004065.1 + 59160 0.7 0.932433
Target:  5'- gCgaGAGUCcGAUCgGGCGCGCGGc-- -3'
miRNA:   3'- -GgaCUCAGcUUAGgCCGUGCGUCaau -5'
16086 3' -52.8 NC_004065.1 + 19734 0.71 0.916251
Target:  5'- uUCUGAGUacccucaacaGAGUcCCGGCAUGCuGUUGu -3'
miRNA:   3'- -GGACUCAg---------CUUA-GGCCGUGCGuCAAU- -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.