miRNA display CGI


Results 1 - 20 of 21 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
11965 5' -52.5 NC_003278.1 + 8227 0.66 0.731009
Target:  5'- aGCcagguuGGUCAGCCAGGgcacaCGGG-CGAggGCGa -3'
miRNA:   3'- aCG------UCAGUUGGUCCa----GCUCaGCU--UGC- -5'
11965 5' -52.5 NC_003278.1 + 32977 0.66 0.731009
Target:  5'- cGguGUCGGCCAGuGcgCGgcacgacaacGGUCGAugGa -3'
miRNA:   3'- aCguCAGUUGGUC-Ca-GC----------UCAGCUugC- -5'
11965 5' -52.5 NC_003278.1 + 26697 0.67 0.719885
Target:  5'- gGUuGUCGAacuucuUCAGGUCGAGgcccaggCGGGCGg -3'
miRNA:   3'- aCGuCAGUU------GGUCCAGCUCa------GCUUGC- -5'
11965 5' -52.5 NC_003278.1 + 22136 0.67 0.708665
Target:  5'- --gGGUCGGCCuggcccauGGUCGAGggcacCGGACGc -3'
miRNA:   3'- acgUCAGUUGGu-------CCAGCUCa----GCUUGC- -5'
11965 5' -52.5 NC_003278.1 + 21660 0.67 0.685991
Target:  5'- aGCAG-CGGCU-GGUCGAacGUCGGugGc -3'
miRNA:   3'- aCGUCaGUUGGuCCAGCU--CAGCUugC- -5'
11965 5' -52.5 NC_003278.1 + 2312 0.67 0.674563
Target:  5'- cGCuGUCuauggaggggcuGGCCAagucGGUgGGGUCGAGCGu -3'
miRNA:   3'- aCGuCAG------------UUGGU----CCAgCUCAGCUUGC- -5'
11965 5' -52.5 NC_003278.1 + 20085 0.68 0.651586
Target:  5'- cGCGG-CuGCCAGGUUGAGcaugcCGGGCa -3'
miRNA:   3'- aCGUCaGuUGGUCCAGCUCa----GCUUGc -5'
11965 5' -52.5 NC_003278.1 + 16721 0.68 0.640062
Target:  5'- cGCGGUgacgugCGACCAGGgcgUCGGugucGUCGAGCu -3'
miRNA:   3'- aCGUCA------GUUGGUCC---AGCU----CAGCUUGc -5'
11965 5' -52.5 NC_003278.1 + 10278 0.68 0.640062
Target:  5'- uUGCAGgacgauACCgAGGUCGAccuugcugcgGUCGAGCa -3'
miRNA:   3'- -ACGUCagu---UGG-UCCAGCU----------CAGCUUGc -5'
11965 5' -52.5 NC_003278.1 + 6785 0.68 0.628531
Target:  5'- gGCAuGUCGGCCuGGUCGG--UGAGCa -3'
miRNA:   3'- aCGU-CAGUUGGuCCAGCUcaGCUUGc -5'
11965 5' -52.5 NC_003278.1 + 23472 0.68 0.61585
Target:  5'- gUGUcGUCGGCCAGGUCGcugaccaGGuccUCGGGCa -3'
miRNA:   3'- -ACGuCAGUUGGUCCAGC-------UC---AGCUUGc -5'
11965 5' -52.5 NC_003278.1 + 12872 0.69 0.594
Target:  5'- aGCGGUUcggacuCCAGGgCGAGgCGGGCGg -3'
miRNA:   3'- aCGUCAGuu----GGUCCaGCUCaGCUUGC- -5'
11965 5' -52.5 NC_003278.1 + 14031 0.69 0.57114
Target:  5'- cGCAcgucGUCGAgCAGGcgcUCGAGcUCGAGCa -3'
miRNA:   3'- aCGU----CAGUUgGUCC---AGCUC-AGCUUGc -5'
11965 5' -52.5 NC_003278.1 + 9282 0.69 0.57114
Target:  5'- gUGUAG-C-GCCGGGUCGGuGUCGAugaaGCGg -3'
miRNA:   3'- -ACGUCaGuUGGUCCAGCU-CAGCU----UGC- -5'
11965 5' -52.5 NC_003278.1 + 22931 0.69 0.57114
Target:  5'- gGCGuGUCAG-CAGGUUGGcGUCGGACu -3'
miRNA:   3'- aCGU-CAGUUgGUCCAGCU-CAGCUUGc -5'
11965 5' -52.5 NC_003278.1 + 4968 0.7 0.526143
Target:  5'- aGCcgAGuUCGGCCAGGUCGGcgggccGUCGaAGCGa -3'
miRNA:   3'- aCG--UC-AGUUGGUCCAGCU------CAGC-UUGC- -5'
11965 5' -52.5 NC_003278.1 + 22849 0.7 0.526143
Target:  5'- cUGCAGcUgGACCAGGccaaCGAGUCcGACGc -3'
miRNA:   3'- -ACGUC-AgUUGGUCCa---GCUCAGcUUGC- -5'
11965 5' -52.5 NC_003278.1 + 8240 0.71 0.451023
Target:  5'- gGCGGUCGcCUGGGUCGAcaagGUCGAcuucgACGa -3'
miRNA:   3'- aCGUCAGUuGGUCCAGCU----CAGCU-----UGC- -5'
11965 5' -52.5 NC_003278.1 + 31642 0.71 0.451023
Target:  5'- cGCAGgcuUCAACCGGGcgcguccgCGGGUCGGcaACGu -3'
miRNA:   3'- aCGUC---AGUUGGUCCa-------GCUCAGCU--UGC- -5'
11965 5' -52.5 NC_003278.1 + 6652 0.8 0.121089
Target:  5'- aGCGGUCGggcauGCCAGGUCGuGUgCGAGCa -3'
miRNA:   3'- aCGUCAGU-----UGGUCCAGCuCA-GCUUGc -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.