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
28050 3' -53.8 NC_005887.1 + 279 0.7 0.520513
Target:  5'- aCGUGGCgcgGGAACuGCgUGGCGuGAUCa -3'
miRNA:   3'- gGCGCUGa--CCUUG-CG-ACCGUuCUAGg -5'
28050 3' -53.8 NC_005887.1 + 4623 0.66 0.719868
Target:  5'- gCCGCGGCgccGGuggcCGCcGGCGcGAUCa -3'
miRNA:   3'- -GGCGCUGa--CCuu--GCGaCCGUuCUAGg -5'
28050 3' -53.8 NC_005887.1 + 6586 0.66 0.752013
Target:  5'- gCCGaGAacaaGGAcaacgucaucgACGCUGGCGgcaccGGAUCCg -3'
miRNA:   3'- -GGCgCUga--CCU-----------UGCGACCGU-----UCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 6816 0.72 0.381003
Target:  5'- gCGCGACUGGcgcuACG-UGGCGcGGGUCUg -3'
miRNA:   3'- gGCGCUGACCu---UGCgACCGU-UCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 8475 0.67 0.6758
Target:  5'- aCgGCGAC-GGAGCGCUGucggcugccGCAGGcUCg -3'
miRNA:   3'- -GgCGCUGaCCUUGCGAC---------CGUUCuAGg -5'
28050 3' -53.8 NC_005887.1 + 8580 0.7 0.531301
Target:  5'- aCCGCaGCaGGuuucguucGACGCUGGCGAGcUCUc -3'
miRNA:   3'- -GGCGcUGaCC--------UUGCGACCGUUCuAGG- -5'
28050 3' -53.8 NC_005887.1 + 9083 0.66 0.719869
Target:  5'- gCUGCGGC-GGGACGaaguuucGCGAGAUCa -3'
miRNA:   3'- -GGCGCUGaCCUUGCgac----CGUUCUAGg -5'
28050 3' -53.8 NC_005887.1 + 9239 0.65 0.771802
Target:  5'- aCgGCGA--GGAACGCaagccgGGCGaccccgacuaccuGGAUCCg -3'
miRNA:   3'- -GgCGCUgaCCUUGCGa-----CCGU-------------UCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 10762 0.67 0.6758
Target:  5'- gCGCGGCgGGuACGaggGGCAgucguGGAUCUg -3'
miRNA:   3'- gGCGCUGaCCuUGCga-CCGU-----UCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 11335 0.69 0.542169
Target:  5'- aCCGCGACggccGGuACGCUGaGCAcacuGAgCCu -3'
miRNA:   3'- -GGCGCUGa---CCuUGCGAC-CGUu---CUaGG- -5'
28050 3' -53.8 NC_005887.1 + 11387 0.75 0.255086
Target:  5'- gCGCaGCcGGAGCGCUGGCGgccGGcgCCg -3'
miRNA:   3'- gGCGcUGaCCUUGCGACCGU---UCuaGG- -5'
28050 3' -53.8 NC_005887.1 + 12143 0.68 0.63104
Target:  5'- gCCGCGACgcGGcGugGCUGGCcggcGAGAa-- -3'
miRNA:   3'- -GGCGCUGa-CC-UugCGACCG----UUCUagg -5'
28050 3' -53.8 NC_005887.1 + 12191 0.73 0.354499
Target:  5'- uCCGCGACUucGACGCcGGCAucGGcgCCg -3'
miRNA:   3'- -GGCGCUGAccUUGCGaCCGU--UCuaGG- -5'
28050 3' -53.8 NC_005887.1 + 14825 0.66 0.719868
Target:  5'- gCCGCGACgcuGAugGCgGGCAc-GUUCg -3'
miRNA:   3'- -GGCGCUGac-CUugCGaCCGUucUAGG- -5'
28050 3' -53.8 NC_005887.1 + 15028 0.66 0.76249
Target:  5'- cUCGCG-CUGaaGAAUGCgGGCGAGAagUCg -3'
miRNA:   3'- -GGCGCuGAC--CUUGCGaCCGUUCU--AGg -5'
28050 3' -53.8 NC_005887.1 + 15391 0.68 0.653461
Target:  5'- gCCGCG-CUGaucGCGCgcgGGCAgcGGAUCg -3'
miRNA:   3'- -GGCGCuGACcu-UGCGa--CCGU--UCUAGg -5'
28050 3' -53.8 NC_005887.1 + 15977 1.13 0.000623
Target:  5'- uCCGCGACUGGAACGCUGGCAAGAUCCc -3'
miRNA:   3'- -GGCGCUGACCUUGCGACCGUUCUAGG- -5'
28050 3' -53.8 NC_005887.1 + 16208 0.66 0.752013
Target:  5'- gCUGCGACcGGAcACGCaGGuCAcGAUCg -3'
miRNA:   3'- -GGCGCUGaCCU-UGCGaCC-GUuCUAGg -5'
28050 3' -53.8 NC_005887.1 + 16404 0.67 0.697967
Target:  5'- gCCGcCGGCcGGAagcucACGCaGGCcGAGAUCg -3'
miRNA:   3'- -GGC-GCUGaCCU-----UGCGaCCG-UUCUAGg -5'
28050 3' -53.8 NC_005887.1 + 16450 0.74 0.297846
Target:  5'- aCCGCGuGCgcgcGGGcauGCGCUcgaccgcgcGGCAGGAUCCg -3'
miRNA:   3'- -GGCGC-UGa---CCU---UGCGA---------CCGUUCUAGG- -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.