miRNA display CGI


Results 1 - 20 of 40 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
11603 3' -57.9 NC_003085.1 + 15878 0.66 0.54676
Target:  5'- gCACCUgACGCAgguagugacguGUCCaGGCGgaaCAGCCa -3'
miRNA:   3'- -GUGGAgUGUGU-----------CAGG-CCGCg--GUUGGa -5'
11603 3' -57.9 NC_003085.1 + 37625 0.66 0.545692
Target:  5'- gCGCCUCACACAGgguguccUCCGccucaGCGUCGgggcACCc -3'
miRNA:   3'- -GUGGAGUGUGUC-------AGGC-----CGCGGU----UGGa -5'
11603 3' -57.9 NC_003085.1 + 34251 0.66 0.544626
Target:  5'- cCACCUCgcccacuuccgcgGCGCGGcgCUGGCGCaccggcuCAGCCg -3'
miRNA:   3'- -GUGGAG-------------UGUGUCa-GGCCGCG-------GUUGGa -5'
11603 3' -57.9 NC_003085.1 + 1492 0.66 0.536116
Target:  5'- cUugCUCgACGCGgcccGUCCGGCGCucgggcaagaggCAGCCg -3'
miRNA:   3'- -GugGAG-UGUGU----CAGGCCGCG------------GUUGGa -5'
11603 3' -57.9 NC_003085.1 + 28205 0.66 0.525546
Target:  5'- gACUUCGCGgAGU-UGGCGCCAgugucgGCCa -3'
miRNA:   3'- gUGGAGUGUgUCAgGCCGCGGU------UGGa -5'
11603 3' -57.9 NC_003085.1 + 6622 0.66 0.525546
Target:  5'- -uCCUCA---AGUCCGGCGCCGGa-- -3'
miRNA:   3'- guGGAGUgugUCAGGCCGCGGUUgga -5'
11603 3' -57.9 NC_003085.1 + 25143 0.66 0.525546
Target:  5'- gCACCacgaaGCGCGGUguggCCGGCGaCCGugGCCUg -3'
miRNA:   3'- -GUGGag---UGUGUCA----GGCCGC-GGU--UGGA- -5'
11603 3' -57.9 NC_003085.1 + 43885 0.66 0.5161
Target:  5'- gCACCagggcguagacguggCGCACcGUCgCGGCGCCAGgCCc -3'
miRNA:   3'- -GUGGa--------------GUGUGuCAG-GCCGCGGUU-GGa -5'
11603 3' -57.9 NC_003085.1 + 2404 0.66 0.50465
Target:  5'- -cCCUUugG-GGUUCGGCGCCuGACCUc -3'
miRNA:   3'- guGGAGugUgUCAGGCCGCGG-UUGGA- -5'
11603 3' -57.9 NC_003085.1 + 40835 0.67 0.474007
Target:  5'- gUACCUgACgGCGGcCgGGCugGCCAACCUg -3'
miRNA:   3'- -GUGGAgUG-UGUCaGgCCG--CGGUUGGA- -5'
11603 3' -57.9 NC_003085.1 + 26269 0.67 0.464001
Target:  5'- uGCCuUCACAgGGUCCuGGCcCuCGGCCUg -3'
miRNA:   3'- gUGG-AGUGUgUCAGG-CCGcG-GUUGGA- -5'
11603 3' -57.9 NC_003085.1 + 30236 0.67 0.454105
Target:  5'- -cCCUgGCGCAGgccuugCgCGGCGCcCAGCCc -3'
miRNA:   3'- guGGAgUGUGUCa-----G-GCCGCG-GUUGGa -5'
11603 3' -57.9 NC_003085.1 + 38136 0.67 0.443354
Target:  5'- cCACCUCGCGggacuucCAGUCCucguccacaaGCGCCAGCg- -3'
miRNA:   3'- -GUGGAGUGU-------GUCAGGc---------CGCGGUUGga -5'
11603 3' -57.9 NC_003085.1 + 30111 0.68 0.434666
Target:  5'- cCGCCUCcucuACACGGacgccaUCCGcCGCCGGCCc -3'
miRNA:   3'- -GUGGAG----UGUGUC------AGGCcGCGGUUGGa -5'
11603 3' -57.9 NC_003085.1 + 39904 0.68 0.425128
Target:  5'- aCACCcCAUGCAGaagCCaGCGUCGGCCg -3'
miRNA:   3'- -GUGGaGUGUGUCa--GGcCGCGGUUGGa -5'
11603 3' -57.9 NC_003085.1 + 41810 0.68 0.415717
Target:  5'- aGgCUCGCGCAugUCGGCGCCGcCCa -3'
miRNA:   3'- gUgGAGUGUGUcaGGCCGCGGUuGGa -5'
11603 3' -57.9 NC_003085.1 + 22112 0.68 0.415717
Target:  5'- cCGCCcaGCAgAGcCCGGCGCCGcagcaGCCg -3'
miRNA:   3'- -GUGGagUGUgUCaGGCCGCGGU-----UGGa -5'
11603 3' -57.9 NC_003085.1 + 25225 0.68 0.415717
Target:  5'- gUACCUCAU-CA--CCGGCGCCGcCCUg -3'
miRNA:   3'- -GUGGAGUGuGUcaGGCCGCGGUuGGA- -5'
11603 3' -57.9 NC_003085.1 + 26115 0.68 0.415717
Target:  5'- gCGCCUCG-GCGG-CCGGCggcgcuugGCCGGCCa -3'
miRNA:   3'- -GUGGAGUgUGUCaGGCCG--------CGGUUGGa -5'
11603 3' -57.9 NC_003085.1 + 4104 0.68 0.415717
Target:  5'- gGCCgg--GCGGUCCaGGCuGCCAGCCa -3'
miRNA:   3'- gUGGagugUGUCAGG-CCG-CGGUUGGa -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.