miRNA display CGI


Results 1 - 20 of 91 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
18984 3' -57.1 NC_004684.1 + 6528 1.1 0.000686
Target:  5'- cGCCUCGGCCAAGCGCGAAGGCGUUCAc -3'
miRNA:   3'- -CGGAGCCGGUUCGCGCUUCCGCAAGU- -5'
18984 3' -57.1 NC_004684.1 + 64238 0.85 0.042549
Target:  5'- gGCCUCGGCCAGGCGCu-GGGUGUUg- -3'
miRNA:   3'- -CGGAGCCGGUUCGCGcuUCCGCAAgu -5'
18984 3' -57.1 NC_004684.1 + 60317 0.77 0.161986
Target:  5'- gGCCUCGGCaaugcguuCGAGCGCGAucaccGcGCGUUCGg -3'
miRNA:   3'- -CGGAGCCG--------GUUCGCGCUu----C-CGCAAGU- -5'
18984 3' -57.1 NC_004684.1 + 13362 0.75 0.227682
Target:  5'- aGCCaccggCGGCCAccAGCGCGcuGGCGgUCAc -3'
miRNA:   3'- -CGGa----GCCGGU--UCGCGCuuCCGCaAGU- -5'
18984 3' -57.1 NC_004684.1 + 460 0.74 0.245744
Target:  5'- gGUCUCGGCCAGGuCGCGcauGGCcaUCAg -3'
miRNA:   3'- -CGGAGCCGGUUC-GCGCuu-CCGcaAGU- -5'
18984 3' -57.1 NC_004684.1 + 19335 0.74 0.264979
Target:  5'- cGCCgUGGCCGAGCG-GGAGGCGc--- -3'
miRNA:   3'- -CGGaGCCGGUUCGCgCUUCCGCaagu -5'
18984 3' -57.1 NC_004684.1 + 63452 0.73 0.278468
Target:  5'- cGCgUCGGCCGcucGGUGCGcuGGGCGgUCAc -3'
miRNA:   3'- -CGgAGCCGGU---UCGCGCu-UCCGCaAGU- -5'
18984 3' -57.1 NC_004684.1 + 40758 0.73 0.307076
Target:  5'- aCCUugcUGGCCGAGCGCGAcuGGCGg--- -3'
miRNA:   3'- cGGA---GCCGGUUCGCGCUu-CCGCaagu -5'
18984 3' -57.1 NC_004684.1 + 15517 0.72 0.314571
Target:  5'- cGCCcggGGCCGGGCGCuGGAGGCGc--- -3'
miRNA:   3'- -CGGag-CCGGUUCGCG-CUUCCGCaagu -5'
18984 3' -57.1 NC_004684.1 + 37721 0.72 0.322203
Target:  5'- gGCCaUGGCC-AGCGCaccGAcGGCGUUCGg -3'
miRNA:   3'- -CGGaGCCGGuUCGCG---CUuCCGCAAGU- -5'
18984 3' -57.1 NC_004684.1 + 36857 0.72 0.337879
Target:  5'- aGCgUCGGCacCGGGCGCGGcccuGGCGgcgUCAg -3'
miRNA:   3'- -CGgAGCCG--GUUCGCGCUu---CCGCa--AGU- -5'
18984 3' -57.1 NC_004684.1 + 66023 0.72 0.337879
Target:  5'- gGCgUCGGCCAGG-GUGuuGGCGUuggUCAg -3'
miRNA:   3'- -CGgAGCCGGUUCgCGCuuCCGCA---AGU- -5'
18984 3' -57.1 NC_004684.1 + 66510 0.71 0.370869
Target:  5'- gGCCUCgcgGGCCGccuucAGCGCGGcccGGCGggCAc -3'
miRNA:   3'- -CGGAG---CCGGU-----UCGCGCUu--CCGCaaGU- -5'
18984 3' -57.1 NC_004684.1 + 46285 0.71 0.370869
Target:  5'- cGUCgcggCGGCCGAGCGCGuugcGGCGcUUg -3'
miRNA:   3'- -CGGa---GCCGGUUCGCGCuu--CCGCaAGu -5'
18984 3' -57.1 NC_004684.1 + 41429 0.71 0.379452
Target:  5'- gGCCUUGGCCcGGC-CGucGGCGgUCGc -3'
miRNA:   3'- -CGGAGCCGGuUCGcGCuuCCGCaAGU- -5'
18984 3' -57.1 NC_004684.1 + 22275 0.7 0.40599
Target:  5'- cGCCUggcggCGGCCAAggcccGCGCGgcGGCGg--- -3'
miRNA:   3'- -CGGA-----GCCGGUU-----CGCGCuuCCGCaagu -5'
18984 3' -57.1 NC_004684.1 + 13561 0.7 0.40599
Target:  5'- gGCCaUCGGCUAcuGCGUcGAGGCGggCAu -3'
miRNA:   3'- -CGG-AGCCGGUu-CGCGcUUCCGCaaGU- -5'
18984 3' -57.1 NC_004684.1 + 25960 0.7 0.415091
Target:  5'- cGCCgagcUGGCCAAgcugguGCGCGAAGGCa---- -3'
miRNA:   3'- -CGGa---GCCGGUU------CGCGCUUCCGcaagu -5'
18984 3' -57.1 NC_004684.1 + 15240 0.7 0.415091
Target:  5'- gGCggCGGCCAGcuGCGCGcuGGCGUggaUCAg -3'
miRNA:   3'- -CGgaGCCGGUU--CGCGCuuCCGCA---AGU- -5'
18984 3' -57.1 NC_004684.1 + 12065 0.7 0.433664
Target:  5'- cGCCUgGccGCCGAGCGCGAcgAGGUGc--- -3'
miRNA:   3'- -CGGAgC--CGGUUCGCGCU--UCCGCaagu -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.