miRNA display CGI


Results 1 - 20 of 60 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
1939 3' -61 NC_001347.2 + 901 0.7 0.601329
Target:  5'- cCGCGCCcCCcGcCCCUUGgucgCgGCCGCg -3'
miRNA:   3'- -GCGUGGaGGuCaGGGAGCa---GgCGGCG- -5'
1939 3' -61 NC_001347.2 + 11801 0.67 0.760459
Target:  5'- gGCACCaugcgCCAGUCCUaucgcuacgCGUCUgggGCCGUu -3'
miRNA:   3'- gCGUGGa----GGUCAGGGa--------GCAGG---CGGCG- -5'
1939 3' -61 NC_001347.2 + 16217 0.68 0.733421
Target:  5'- aCGCGCCUCUAcaucuacgaaCCCUCGcaagagauUCUGCUGCu -3'
miRNA:   3'- -GCGUGGAGGUca--------GGGAGC--------AGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 17112 0.72 0.455205
Target:  5'- cCGCGCCaugCCGGUCguccgCCgUCGgCCGCCGCc -3'
miRNA:   3'- -GCGUGGa--GGUCAG-----GG-AGCaGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 21353 0.7 0.620373
Target:  5'- gCGCGCCUCCG--UCCUCGU-CGCCu- -3'
miRNA:   3'- -GCGUGGAGGUcaGGGAGCAgGCGGcg -5'
1939 3' -61 NC_001347.2 + 31125 0.68 0.68693
Target:  5'- gGCcgGCgUCCAGgcugCCCUgGUugCCGCUGCg -3'
miRNA:   3'- gCG--UGgAGGUCa---GGGAgCA--GGCGGCG- -5'
1939 3' -61 NC_001347.2 + 35640 0.76 0.278173
Target:  5'- uGgACCUCCAuggGUCCCUUGaUCCGCCuGCc -3'
miRNA:   3'- gCgUGGAGGU---CAGGGAGC-AGGCGG-CG- -5'
1939 3' -61 NC_001347.2 + 37982 0.69 0.668007
Target:  5'- -aCugCUCgCGGUCCagCUCGggcagcagCCGCCGCg -3'
miRNA:   3'- gcGugGAG-GUCAGG--GAGCa-------GGCGGCG- -5'
1939 3' -61 NC_001347.2 + 38179 0.67 0.769284
Target:  5'- gCGCGCggCaCGGUCCC-CGacgCCGCCGg -3'
miRNA:   3'- -GCGUGgaG-GUCAGGGaGCa--GGCGGCg -5'
1939 3' -61 NC_001347.2 + 38397 0.67 0.778003
Target:  5'- gGCgGCCUCC-GUCUC-CGUgCCGCuCGCc -3'
miRNA:   3'- gCG-UGGAGGuCAGGGaGCA-GGCG-GCG- -5'
1939 3' -61 NC_001347.2 + 38697 0.68 0.724246
Target:  5'- gCGCAgCUCCcGUCCgagCG-CCGUCGCc -3'
miRNA:   3'- -GCGUgGAGGuCAGGga-GCaGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 38831 0.7 0.572926
Target:  5'- cCGCGCCgugCCGaaaCCaCUCGUCCGCguCGCg -3'
miRNA:   3'- -GCGUGGa--GGUca-GG-GAGCAGGCG--GCG- -5'
1939 3' -61 NC_001347.2 + 39486 0.7 0.610844
Target:  5'- gGC-CCUCCGG-CCC-CG-CgGCCGCg -3'
miRNA:   3'- gCGuGGAGGUCaGGGaGCaGgCGGCG- -5'
1939 3' -61 NC_001347.2 + 41143 0.67 0.769284
Target:  5'- gGCuACC-CC-GUCCCcCGcgcggaaaUCCGCCGCg -3'
miRNA:   3'- gCG-UGGaGGuCAGGGaGC--------AGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 62728 0.7 0.591834
Target:  5'- -cCACCUCCuccUCCCUCGcgCCGCCcCg -3'
miRNA:   3'- gcGUGGAGGuc-AGGGAGCa-GGCGGcG- -5'
1939 3' -61 NC_001347.2 + 63239 0.67 0.769284
Target:  5'- aCGCcgGCCUCCGcggCCgCUgCGcCCGCCGUg -3'
miRNA:   3'- -GCG--UGGAGGUca-GG-GA-GCaGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 67697 0.69 0.668007
Target:  5'- uGCugCUCC-GUCUcguuCUUG-CCGCCGCc -3'
miRNA:   3'- gCGugGAGGuCAGG----GAGCaGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 68134 0.67 0.760459
Target:  5'- aCGCugUUCCuG-CCUUCG-CCGuuGCu -3'
miRNA:   3'- -GCGugGAGGuCaGGGAGCaGGCggCG- -5'
1939 3' -61 NC_001347.2 + 69613 0.71 0.535585
Target:  5'- cCGCAgCaugCC-GUCCCa-GUCCGCCGCc -3'
miRNA:   3'- -GCGUgGa--GGuCAGGGagCAGGCGGCG- -5'
1939 3' -61 NC_001347.2 + 78964 0.66 0.818149
Target:  5'- gGCcuACCUgCAGcucUCCUUCGgcgagaucguggCCGCCGCc -3'
miRNA:   3'- gCG--UGGAgGUC---AGGGAGCa-----------GGCGGCG- -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.