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
21254 3' -54.2 NC_004778.3 + 121307 0.66 0.939382
Target:  5'- aACcCGCUGCAGAUggcuugcagcuGcGCCGuGuCGGCg -3'
miRNA:   3'- -UGaGCGACGUCUAau---------CuUGGC-C-GCCG- -5'
21254 3' -54.2 NC_004778.3 + 89163 0.66 0.930237
Target:  5'- ---gGCUGgAGAUgc-AGCCGGCGuGCa -3'
miRNA:   3'- ugagCGACgUCUAaucUUGGCCGC-CG- -5'
21254 3' -54.2 NC_004778.3 + 117782 0.66 0.924804
Target:  5'- gGCUCGCcGgGGAUgcucGugUCGGCGGUu -3'
miRNA:   3'- -UGAGCGaCgUCUAau--CuuGGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 116317 0.66 0.919119
Target:  5'- aAUUCGCgucGCGuuGGcgGGGugCGGCGGUa -3'
miRNA:   3'- -UGAGCGa--CGU--CUaaUCUugGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 15586 0.66 0.919119
Target:  5'- gGCggCGCUGC-GAgcAGugcuuugauAUCGGCGGCg -3'
miRNA:   3'- -UGa-GCGACGuCUaaUCu--------UGGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 41825 0.66 0.913183
Target:  5'- cGCaCGCUGuCGGAggcguuggAGAACUGGCucgcGGCg -3'
miRNA:   3'- -UGaGCGAC-GUCUaa------UCUUGGCCG----CCG- -5'
21254 3' -54.2 NC_004778.3 + 38914 0.66 0.913183
Target:  5'- aAC-CGCcuUGCAGAgagccugcagUGGAuGCgCGGCGGCu -3'
miRNA:   3'- -UGaGCG--ACGUCUa---------AUCU-UG-GCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 75311 0.66 0.913183
Target:  5'- aGCaaGCUGCGGccaguGAGCCcgccccGGCGGCc -3'
miRNA:   3'- -UGagCGACGUCuaau-CUUGG------CCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 93043 0.67 0.899905
Target:  5'- gGCUCGCUGCGGcucaagcuggacgccGAGCCGuucuCGGCc -3'
miRNA:   3'- -UGAGCGACGUCuaau-----------CUUGGCc---GCCG- -5'
21254 3' -54.2 NC_004778.3 + 63491 0.67 0.893882
Target:  5'- --gCGCggGCGGAUUcGGGCucaugcugCGGCGGCg -3'
miRNA:   3'- ugaGCGa-CGUCUAAuCUUG--------GCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 70220 0.67 0.893882
Target:  5'- --aCGCgucCAGGUUGGcGCCGGUGGg -3'
miRNA:   3'- ugaGCGac-GUCUAAUCuUGGCCGCCg -5'
21254 3' -54.2 NC_004778.3 + 76604 0.67 0.891831
Target:  5'- uUUCGCUGCuGGcggAGAgaaugguugucacaGCgGGCGGCc -3'
miRNA:   3'- uGAGCGACGuCUaa-UCU--------------UGgCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 128725 0.67 0.879803
Target:  5'- --gCGCUGCAGcaucaaucgaAUUGucGAGCaaCGGCGGCg -3'
miRNA:   3'- ugaGCGACGUC----------UAAU--CUUG--GCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 4239 0.67 0.879075
Target:  5'- uCUCGCUgauuaacGCGGAcgUGGGACCcaucaGGCaGGCg -3'
miRNA:   3'- uGAGCGA-------CGUCUa-AUCUUGG-----CCG-CCG- -5'
21254 3' -54.2 NC_004778.3 + 28856 0.68 0.848903
Target:  5'- uGCagCGCUGCAGcg-AGcgcuauuguuGGCCGGaCGGCa -3'
miRNA:   3'- -UGa-GCGACGUCuaaUC----------UUGGCC-GCCG- -5'
21254 3' -54.2 NC_004778.3 + 124356 0.68 0.848903
Target:  5'- gAC-CGCga-AGAcc-GGACCGGCGGCg -3'
miRNA:   3'- -UGaGCGacgUCUaauCUUGGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 11835 0.69 0.832183
Target:  5'- gUUUGcCUGCAGG-UGGAAauguggucguCCGGCGGUg -3'
miRNA:   3'- uGAGC-GACGUCUaAUCUU----------GGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 114073 0.69 0.805685
Target:  5'- cGCUCGCUcuccGC-GAgcgaGGAACCcGCGGCg -3'
miRNA:   3'- -UGAGCGA----CGuCUaa--UCUUGGcCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 83258 0.69 0.796508
Target:  5'- uGCgUUGUUGCAGAcgcgcGGAACggcgCGGCGGCu -3'
miRNA:   3'- -UG-AGCGACGUCUaa---UCUUG----GCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 87393 0.69 0.784347
Target:  5'- aAUUCGCUGCAcuuguccguaauGAGCUGGCGGg -3'
miRNA:   3'- -UGAGCGACGUcuaau-------CUUGGCCGCCg -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.