miRNA display CGI


Results 1 - 18 of 18 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
12005 3' -54.9 NC_003278.1 + 19375 0.66 0.625366
Target:  5'- ---uGGaGCAGGUCAGcacCGCGCUGgCCg -3'
miRNA:   3'- gaauCC-CGUCUAGUUc--GCGCGGCaGG- -5'
12005 3' -54.9 NC_003278.1 + 6109 0.66 0.613972
Target:  5'- ----uGGCAGAUC-GGCGguCGCCG-CCg -3'
miRNA:   3'- gaaucCCGUCUAGuUCGC--GCGGCaGG- -5'
12005 3' -54.9 NC_003278.1 + 22737 0.66 0.579934
Target:  5'- --cGGGcGCGGAugcugagcacgUCcGGCGCGCCG-CUg -3'
miRNA:   3'- gaaUCC-CGUCU-----------AGuUCGCGCGGCaGG- -5'
12005 3' -54.9 NC_003278.1 + 18428 0.67 0.568667
Target:  5'- --gAGGGCugucAGAUcCAGGC-CGCCGagggUCCa -3'
miRNA:   3'- gaaUCCCG----UCUA-GUUCGcGCGGC----AGG- -5'
12005 3' -54.9 NC_003278.1 + 4977 0.67 0.568667
Target:  5'- ---cGGcCAGGUC-GGCGgGCCGUCg -3'
miRNA:   3'- gaauCCcGUCUAGuUCGCgCGGCAGg -5'
12005 3' -54.9 NC_003278.1 + 22720 0.67 0.557456
Target:  5'- --aAGGGCcugaAGGUCAAGCGCGaacgcaGUUg -3'
miRNA:   3'- gaaUCCCG----UCUAGUUCGCGCgg----CAGg -5'
12005 3' -54.9 NC_003278.1 + 30926 0.67 0.535235
Target:  5'- --cAGcGCuGuUCGAGCGUGCCuGUCCg -3'
miRNA:   3'- gaaUCcCGuCuAGUUCGCGCGG-CAGG- -5'
12005 3' -54.9 NC_003278.1 + 27645 0.67 0.513333
Target:  5'- ---cGGGCAGAU--AGCGgGCCGg-- -3'
miRNA:   3'- gaauCCCGUCUAguUCGCgCGGCagg -5'
12005 3' -54.9 NC_003278.1 + 22102 0.68 0.50252
Target:  5'- ---cGGGCAGggUGAuCGCGUCGUCg -3'
miRNA:   3'- gaauCCCGUCuaGUUcGCGCGGCAGg -5'
12005 3' -54.9 NC_003278.1 + 23556 0.69 0.410372
Target:  5'- --aAGGGCAGcgCgAAGCGgGCUGUg- -3'
miRNA:   3'- gaaUCCCGUCuaG-UUCGCgCGGCAgg -5'
12005 3' -54.9 NC_003278.1 + 21032 0.69 0.410372
Target:  5'- --cAGGGCGG-UCAccAGCGgGCCGaUCa -3'
miRNA:   3'- gaaUCCCGUCuAGU--UCGCgCGGC-AGg -5'
12005 3' -54.9 NC_003278.1 + 10425 0.69 0.40079
Target:  5'- -----cGCAGAUCAGGCGC-CCGgCCa -3'
miRNA:   3'- gaauccCGUCUAGUUCGCGcGGCaGG- -5'
12005 3' -54.9 NC_003278.1 + 14138 0.7 0.391352
Target:  5'- --aGGGGCuGAUUuccaGGGUGuCGCCGUCg -3'
miRNA:   3'- gaaUCCCGuCUAG----UUCGC-GCGGCAGg -5'
12005 3' -54.9 NC_003278.1 + 19399 0.71 0.329472
Target:  5'- -cUGGGuGCGGA--AGGCGCGCaCGUCg -3'
miRNA:   3'- gaAUCC-CGUCUagUUCGCGCG-GCAGg -5'
12005 3' -54.9 NC_003278.1 + 14301 0.72 0.297487
Target:  5'- --aGGGGaugGGGUCAgccgucucgccgGGCGCGCCG-CCg -3'
miRNA:   3'- gaaUCCCg--UCUAGU------------UCGCGCGGCaGG- -5'
12005 3' -54.9 NC_003278.1 + 23865 0.75 0.193502
Target:  5'- uUUAGGGCGGcaacAUCGcugaguAGCGUGCCGUUa -3'
miRNA:   3'- gAAUCCCGUC----UAGU------UCGCGCGGCAGg -5'
12005 3' -54.9 NC_003278.1 + 21918 0.75 0.188192
Target:  5'- ---cGGGC-GcgCAGGCGCGCCG-CCu -3'
miRNA:   3'- gaauCCCGuCuaGUUCGCGCGGCaGG- -5'
12005 3' -54.9 NC_003278.1 + 21332 1.13 0.000331
Target:  5'- gCUUAGGGCAGAUCAAGCGCGCCGUCCa -3'
miRNA:   3'- -GAAUCCCGUCUAGUUCGCGCGGCAGG- -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.