miRNA display CGI


Results 1 - 20 of 20 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
28765 5' -48.4 NC_006146.1 + 98456 0.66 0.999357
Target:  5'- cGCC---GCCcGGgggCCAGUCUcuggGUCAGu -3'
miRNA:   3'- -CGGauuUGGaCCa--GGUCAGAa---UAGUC- -5'
28765 5' -48.4 NC_006146.1 + 131240 0.67 0.999025
Target:  5'- cGCCcccaGAGCCUGGaucUCCAGcCUcAUCAc -3'
miRNA:   3'- -CGGa---UUUGGACC---AGGUCaGAaUAGUc -5'
28765 5' -48.4 NC_006146.1 + 101051 0.67 0.999005
Target:  5'- uGCCUGcGCCUGcGUgacccgcuucucgCCGGUCUgggugGUCAa -3'
miRNA:   3'- -CGGAUuUGGAC-CA-------------GGUCAGAa----UAGUc -5'
28765 5' -48.4 NC_006146.1 + 25779 0.67 0.998555
Target:  5'- gGCCaGAGCCUGGcCCAGgccuUCUUcAUCu- -3'
miRNA:   3'- -CGGaUUUGGACCaGGUC----AGAA-UAGuc -5'
28765 5' -48.4 NC_006146.1 + 125368 0.68 0.9975
Target:  5'- uGCCUGGcCCUGGUCaCGuUCUUGUgCAu -3'
miRNA:   3'- -CGGAUUuGGACCAG-GUcAGAAUA-GUc -5'
28765 5' -48.4 NC_006146.1 + 132668 0.69 0.994694
Target:  5'- cGCCgAGACg-GGUCCAGUUUUAcgcugcgugaauucuUCAGg -3'
miRNA:   3'- -CGGaUUUGgaCCAGGUCAGAAU---------------AGUC- -5'
28765 5' -48.4 NC_006146.1 + 59254 0.69 0.993455
Target:  5'- gGCCUGgguguucagGGCCUGG-CCGacGUCUUcgCGGa -3'
miRNA:   3'- -CGGAU---------UUGGACCaGGU--CAGAAuaGUC- -5'
28765 5' -48.4 NC_006146.1 + 27641 0.69 0.993162
Target:  5'- cGCUUcuugcucuucacagGAACCUggGGUCUAGUCUgggugggAUCAGg -3'
miRNA:   3'- -CGGA--------------UUUGGA--CCAGGUCAGAa------UAGUC- -5'
28765 5' -48.4 NC_006146.1 + 24563 0.69 0.993162
Target:  5'- cGCUUcuugcucuucacagGAACCUggGGUCUAGUCUgggugggAUCAGg -3'
miRNA:   3'- -CGGA--------------UUUGGA--CCAGGUCAGAa------UAGUC- -5'
28765 5' -48.4 NC_006146.1 + 21485 0.69 0.993162
Target:  5'- cGCUUcuugcucuucacagGAACCUggGGUCUAGUCUgggugggAUCAGg -3'
miRNA:   3'- -CGGA--------------UUUGGA--CCAGGUCAGAa------UAGUC- -5'
28765 5' -48.4 NC_006146.1 + 18407 0.69 0.993162
Target:  5'- cGCUUcuugcucuucacagGAACCUggGGUCUAGUCUgggugggAUCAGg -3'
miRNA:   3'- -CGGA--------------UUUGGA--CCAGGUCAGAa------UAGUC- -5'
28765 5' -48.4 NC_006146.1 + 15329 0.69 0.993162
Target:  5'- cGCUUcuugcucuucacagGAACCUggGGUCUAGUCUgggugggAUCAGg -3'
miRNA:   3'- -CGGA--------------UUUGGA--CCAGGUCAGAa------UAGUC- -5'
28765 5' -48.4 NC_006146.1 + 12250 0.69 0.993162
Target:  5'- cGCUUcuugcucuucacagGAACCUggGGUCUAGUCUgggugggAUCAGg -3'
miRNA:   3'- -CGGA--------------UUUGGA--CCAGGUCAGAa------UAGUC- -5'
28765 5' -48.4 NC_006146.1 + 157256 0.7 0.990023
Target:  5'- gGCCgcuGCCUGuGUCCGGcgCUUgaucGUCAGc -3'
miRNA:   3'- -CGGauuUGGAC-CAGGUCa-GAA----UAGUC- -5'
28765 5' -48.4 NC_006146.1 + 85480 0.7 0.990023
Target:  5'- gGCCUucacGGCCUGG-CUGGUCUccucGUCGGg -3'
miRNA:   3'- -CGGAu---UUGGACCaGGUCAGAa---UAGUC- -5'
28765 5' -48.4 NC_006146.1 + 60804 0.7 0.990023
Target:  5'- uCCaGGGCCUGGUCCGGaCcgUUGUCAa -3'
miRNA:   3'- cGGaUUUGGACCAGGUCaG--AAUAGUc -5'
28765 5' -48.4 NC_006146.1 + 116595 0.71 0.976625
Target:  5'- gGCCUGAGCCUGGccacacgucgcuUCCuGGUC---UCAGg -3'
miRNA:   3'- -CGGAUUUGGACC------------AGG-UCAGaauAGUC- -5'
28765 5' -48.4 NC_006146.1 + 60418 0.72 0.967974
Target:  5'- uCCUGGACCUGG-CCGGgguggaaUGUCAGa -3'
miRNA:   3'- cGGAUUUGGACCaGGUCaga----AUAGUC- -5'
28765 5' -48.4 NC_006146.1 + 110117 0.73 0.948899
Target:  5'- cCCUGGACCUGGUCCGG-CUc----- -3'
miRNA:   3'- cGGAUUUGGACCAGGUCaGAauaguc -5'
28765 5' -48.4 NC_006146.1 + 132386 1.13 0.010584
Target:  5'- gGCCUAAACCUGGUCCAGUCUUAUCAGa -3'
miRNA:   3'- -CGGAUUUGGACCAGGUCAGAAUAGUC- -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.