miRNA display CGI


Results 1 - 20 of 29 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
28731 3' -57.1 NC_006146.1 + 44779 0.66 0.900253
Target:  5'- gUGCcGUGCCGG-Gc--UCAGGGGGGc -3'
miRNA:   3'- gACGuCAUGGCCgCacuAGUCCCCUC- -5'
28731 3' -57.1 NC_006146.1 + 170661 0.66 0.865959
Target:  5'- -cGCAG-AUCGGCG----CGGGGGAGg -3'
miRNA:   3'- gaCGUCaUGGCCGCacuaGUCCCCUC- -5'
28731 3' -57.1 NC_006146.1 + 166665 0.66 0.865959
Target:  5'- -aGCGGgaagggggAgCGGUGUGGccuggCAGGGGGGa -3'
miRNA:   3'- gaCGUCa-------UgGCCGCACUa----GUCCCCUC- -5'
28731 3' -57.1 NC_006146.1 + 71484 0.66 0.887187
Target:  5'- cCUGCcGUuugGCCGGUgGUGccUGGGGGAGg -3'
miRNA:   3'- -GACGuCA---UGGCCG-CACuaGUCCCCUC- -5'
28731 3' -57.1 NC_006146.1 + 88256 0.66 0.887187
Target:  5'- uUGCAGgcaaaauCCGGCGUGugcuggGUCGGGccucuGGGGa -3'
miRNA:   3'- gACGUCau-----GGCCGCAC------UAGUCC-----CCUC- -5'
28731 3' -57.1 NC_006146.1 + 52990 0.66 0.887187
Target:  5'- -gGCGGaccUGCCGGcCGUGGccgCGGGGGu- -3'
miRNA:   3'- gaCGUC---AUGGCC-GCACUa--GUCCCCuc -5'
28731 3' -57.1 NC_006146.1 + 44002 0.66 0.893831
Target:  5'- -aGUAG-GCCGGagGUgGAUguGGGGAGg -3'
miRNA:   3'- gaCGUCaUGGCCg-CA-CUAguCCCCUC- -5'
28731 3' -57.1 NC_006146.1 + 128868 0.66 0.893831
Target:  5'- -aGCuc-ACCGGCGUGAgcccgggccCAGaGGGAGu -3'
miRNA:   3'- gaCGucaUGGCCGCACUa--------GUC-CCCUC- -5'
28731 3' -57.1 NC_006146.1 + 34029 0.67 0.858466
Target:  5'- -gGCAG-GCgGGCGUGGUCccGGGGc -3'
miRNA:   3'- gaCGUCaUGgCCGCACUAGucCCCUc -5'
28731 3' -57.1 NC_006146.1 + 155936 0.67 0.858466
Target:  5'- -gGCGGaGCCGGCGaUGA-CGGuGGAGg -3'
miRNA:   3'- gaCGUCaUGGCCGC-ACUaGUCcCCUC- -5'
28731 3' -57.1 NC_006146.1 + 14619 0.67 0.850775
Target:  5'- gUGCccUGCUGGCGcUGcgUGGGGGAGc -3'
miRNA:   3'- gACGucAUGGCCGC-ACuaGUCCCCUC- -5'
28731 3' -57.1 NC_006146.1 + 50710 0.67 0.850775
Target:  5'- -gGCAGgccugaaaGCCGGCGuUGAgCGGGGGcGa -3'
miRNA:   3'- gaCGUCa-------UGGCCGC-ACUaGUCCCCuC- -5'
28731 3' -57.1 NC_006146.1 + 143625 0.67 0.858466
Target:  5'- -gGCGGaGCCGGCGaUGA-CGGuGGAGg -3'
miRNA:   3'- gaCGUCaUGGCCGC-ACUaGUCcCCUC- -5'
28731 3' -57.1 NC_006146.1 + 149780 0.67 0.858466
Target:  5'- -gGCGGaGCCGGCGaUGA-CGGuGGAGg -3'
miRNA:   3'- gaCGUCaUGGCCGC-ACUaGUCcCCUC- -5'
28731 3' -57.1 NC_006146.1 + 152858 0.67 0.858466
Target:  5'- -gGCGGaGCCGGCGaUGA-CGGuGGAGg -3'
miRNA:   3'- gaCGUCaUGGCCGC-ACUaGUCcCCUC- -5'
28731 3' -57.1 NC_006146.1 + 106645 0.68 0.809563
Target:  5'- cCUGCuGcgGCCGGC-UGGUCAGGGc-- -3'
miRNA:   3'- -GACGuCa-UGGCCGcACUAGUCCCcuc -5'
28731 3' -57.1 NC_006146.1 + 37653 0.69 0.745543
Target:  5'- uUGguGUAUUGGUGuUGAgggUAGGGGGGc -3'
miRNA:   3'- gACguCAUGGCCGC-ACUa--GUCCCCUC- -5'
28731 3' -57.1 NC_006146.1 + 102572 0.7 0.68679
Target:  5'- -aGCAGguccgaGCCGaGCGUGcagGUCGGGGGGu -3'
miRNA:   3'- gaCGUCa-----UGGC-CGCAC---UAGUCCCCUc -5'
28731 3' -57.1 NC_006146.1 + 43599 0.7 0.66676
Target:  5'- -gGCGGgagGCCGGguCG-GGUCGGGGGAa -3'
miRNA:   3'- gaCGUCa--UGGCC--GCaCUAGUCCCCUc -5'
28731 3' -57.1 NC_006146.1 + 128787 0.71 0.595206
Target:  5'- -aGCAGgGCCGaaGCGUGAUCGGccacacaGGGAGg -3'
miRNA:   3'- gaCGUCaUGGC--CGCACUAGUC-------CCCUC- -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.