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 + 34519 0.69 0.353563
Target:  5'- gCGCUUCGCGCAGuUCCGcgaguuggaGCGCCAcgcgcuggcgGCCg -3'
miRNA:   3'- -GUGGAGUGUGUC-AGGC---------CGCGGU----------UGGa -5'
11603 3' -57.9 NC_003085.1 + 4104 0.68 0.415717
Target:  5'- gGCCgg--GCGGUCCaGGCuGCCAGCCa -3'
miRNA:   3'- gUGGagugUGUCAGG-CCG-CGGUUGGa -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 + 26269 0.67 0.464001
Target:  5'- uGCCuUCACAgGGUCCuGGCcCuCGGCCUg -3'
miRNA:   3'- gUGG-AGUGUgUCAGG-CCGcG-GUUGGA- -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 + 48829 0.75 0.138758
Target:  5'- gCGCCUCgACGaGGUCC-GCGCCAGCCUc -3'
miRNA:   3'- -GUGGAG-UGUgUCAGGcCGCGGUUGGA- -5'
11603 3' -57.9 NC_003085.1 + 8726 0.75 0.154876
Target:  5'- aCACCUC-CAguGccUCCGGCGCCGGCg- -3'
miRNA:   3'- -GUGGAGuGUguC--AGGCCGCGGUUGga -5'
11603 3' -57.9 NC_003085.1 + 23523 0.71 0.263036
Target:  5'- aCGCUUCACGCAGUCCuuCGCCuucuCCa -3'
miRNA:   3'- -GUGGAGUGUGUCAGGccGCGGuu--GGa -5'
11603 3' -57.9 NC_003085.1 + 39743 0.68 0.388264
Target:  5'- aCGCCgaggaCACACAGgcguUCCGGCGCU--CCa -3'
miRNA:   3'- -GUGGa----GUGUGUC----AGGCCGCGGuuGGa -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 + 37625 0.66 0.545692
Target:  5'- gCGCCUCACACAGgguguccUCCGccucaGCGUCGgggcACCc -3'
miRNA:   3'- -GUGGAGUGUGUC-------AGGC-----CGCGGU----UGGa -5'
11603 3' -57.9 NC_003085.1 + 16606 0.71 0.256408
Target:  5'- gGCCUCccGgGCGGUCCcgcGGCGCgCGGCCUc -3'
miRNA:   3'- gUGGAG--UgUGUCAGG---CCGCG-GUUGGA- -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 + 12394 0.68 0.397282
Target:  5'- cCACCUgcaucCGCACGucgUCGGCGCCAGCg- -3'
miRNA:   3'- -GUGGA-----GUGUGUca-GGCCGCGGUUGga -5'
11603 3' -57.9 NC_003085.1 + 35664 0.74 0.163556
Target:  5'- cCACCUcCACGCAGaCUGGCGUCAcgcucGCCUu -3'
miRNA:   3'- -GUGGA-GUGUGUCaGGCCGCGGU-----UGGA- -5'
11603 3' -57.9 NC_003085.1 + 42830 0.79 0.079056
Target:  5'- gCACCUUGCGCucacGUCCGGCGCCGgACUUg -3'
miRNA:   3'- -GUGGAGUGUGu---CAGGCCGCGGU-UGGA- -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 + 48415 0.7 0.313355
Target:  5'- aGCCacgCGgGCAGUUCGGCGCCuuCUg -3'
miRNA:   3'- gUGGa--GUgUGUCAGGCCGCGGuuGGa -5'
11603 3' -57.9 NC_003085.1 + 30111 0.68 0.434666
Target:  5'- cCGCCUCcucuACACGGacgccaUCCGcCGCCGGCCc -3'
miRNA:   3'- -GUGGAG----UGUGUC------AGGCcGCGGUUGGa -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.