miRNA display CGI


Results 1 - 20 of 34 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
11931 3' -55.8 NC_003278.1 + 3974 0.7 0.364637
Target:  5'- gGUCGAuuucCUUGUAGUCC-CGCCGGu- -3'
miRNA:   3'- gCAGCUu---GAGCAUCGGGuGCGGCUcg -5'
11931 3' -55.8 NC_003278.1 + 5662 0.74 0.21646
Target:  5'- gCGUCGcgcagcagggccugGACUCGgggaacuUGGCCCagGCGUCGAGCa -3'
miRNA:   3'- -GCAGC--------------UUGAGC-------AUCGGG--UGCGGCUCG- -5'
11931 3' -55.8 NC_003278.1 + 5887 0.72 0.256458
Target:  5'- gCGUCGAGguuCUUGUAGUCgGCGUCG-GCg -3'
miRNA:   3'- -GCAGCUU---GAGCAUCGGgUGCGGCuCG- -5'
11931 3' -55.8 NC_003278.1 + 8123 0.68 0.46937
Target:  5'- gGUCcuGCuUCGUgccgguggccAGCCagGCGCCGAGCa -3'
miRNA:   3'- gCAGcuUG-AGCA----------UCGGg-UGCGGCUCG- -5'
11931 3' -55.8 NC_003278.1 + 9397 0.7 0.347406
Target:  5'- aGUUGGcguguuGCUCGUAgGCUCGCG-CGAGCu -3'
miRNA:   3'- gCAGCU------UGAGCAU-CGGGUGCgGCUCG- -5'
11931 3' -55.8 NC_003278.1 + 9460 0.66 0.565315
Target:  5'- -aUCGAcCUgGcgcaggcccgccUGGCCCAgGCCGAGUu -3'
miRNA:   3'- gcAGCUuGAgC------------AUCGGGUgCGGCUCG- -5'
11931 3' -55.8 NC_003278.1 + 9841 0.75 0.180928
Target:  5'- gGUCGAGCguaUCGgccUGGCCUggGCCGAGUg -3'
miRNA:   3'- gCAGCUUG---AGC---AUCGGGugCGGCUCG- -5'
11931 3' -55.8 NC_003278.1 + 9924 0.66 0.565315
Target:  5'- uGUCGAccuucgcggcgcACUCG--GCCCAgGCCaGGCc -3'
miRNA:   3'- gCAGCU------------UGAGCauCGGGUgCGGcUCG- -5'
11931 3' -55.8 NC_003278.1 + 10333 0.66 0.580781
Target:  5'- gGUCGAugggccgaugcagauGCUCGccaacggcgAGCUgCugGCCGAGUg -3'
miRNA:   3'- gCAGCU---------------UGAGCa--------UCGG-GugCGGCUCG- -5'
11931 3' -55.8 NC_003278.1 + 13607 0.66 0.576352
Target:  5'- --cCGAACUUG-AGCgCCugGCCGccgaAGCc -3'
miRNA:   3'- gcaGCUUGAGCaUCG-GGugCGGC----UCG- -5'
11931 3' -55.8 NC_003278.1 + 13733 0.72 0.263229
Target:  5'- cCGUCGAucGCUgGgacAGCaCCugGCCgGAGCg -3'
miRNA:   3'- -GCAGCU--UGAgCa--UCG-GGugCGG-CUCG- -5'
11931 3' -55.8 NC_003278.1 + 14025 0.67 0.521802
Target:  5'- uCGUCGAGCa-GgcGCUCGaGCuCGAGCa -3'
miRNA:   3'- -GCAGCUUGagCauCGGGUgCG-GCUCG- -5'
11931 3' -55.8 NC_003278.1 + 14990 0.71 0.330766
Target:  5'- aCGUUGca-UCGccGCUCGCGCUGAGCg -3'
miRNA:   3'- -GCAGCuugAGCauCGGGUGCGGCUCG- -5'
11931 3' -55.8 NC_003278.1 + 15038 0.68 0.449158
Target:  5'- gCGUCaGGACUCcguugacguuuGUGGCCCcauCGaaCCGAGCu -3'
miRNA:   3'- -GCAG-CUUGAG-----------CAUCGGGu--GC--GGCUCG- -5'
11931 3' -55.8 NC_003278.1 + 16701 0.66 0.587437
Target:  5'- gCGUCGGugUCGUcgAGCUgGCgGUCGcGCc -3'
miRNA:   3'- -GCAGCUugAGCA--UCGGgUG-CGGCuCG- -5'
11931 3' -55.8 NC_003278.1 + 18479 0.67 0.50053
Target:  5'- cCGUCGAAaUCGUcGUUCGCGgCCG-GCa -3'
miRNA:   3'- -GCAGCUUgAGCAuCGGGUGC-GGCuCG- -5'
11931 3' -55.8 NC_003278.1 + 19874 1.12 0.000337
Target:  5'- gCGUCGAACUCGUAGCCCACGCCGAGCa -3'
miRNA:   3'- -GCAGCUUGAGCAUCGGGUGCGGCUCG- -5'
11931 3' -55.8 NC_003278.1 + 20272 0.7 0.339012
Target:  5'- gGcCGuACUCGcGGCCgACGCCG-GCg -3'
miRNA:   3'- gCaGCuUGAGCaUCGGgUGCGGCuCG- -5'
11931 3' -55.8 NC_003278.1 + 21300 0.71 0.322668
Target:  5'- gGUCGAugccCagGUAGCCCaggACGCCG-GCg -3'
miRNA:   3'- gCAGCUu---GagCAUCGGG---UGCGGCuCG- -5'
11931 3' -55.8 NC_003278.1 + 21532 0.67 0.50053
Target:  5'- aG-CGGGC-CGgccUGGCCgGCGCCGAGg -3'
miRNA:   3'- gCaGCUUGaGC---AUCGGgUGCGGCUCg -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.