miRNA display CGI


Results 1 - 20 of 26 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
16418 3' -57.2 NC_004084.1 + 24167 1.11 0.000558
Target:  5'- gGAGGUUCACCGACGCUCCCGCACACCu -3'
miRNA:   3'- -CUCCAAGUGGCUGCGAGGGCGUGUGG- -5'
16418 3' -57.2 NC_004084.1 + 50620 0.76 0.176482
Target:  5'- cGGGUUCGCCGACGCUgCgGCGgggaagaACCa -3'
miRNA:   3'- cUCCAAGUGGCUGCGAgGgCGUg------UGG- -5'
16418 3' -57.2 NC_004084.1 + 48545 0.72 0.316536
Target:  5'- -cGG-UCGCCGACucuuccgccggGCUCCCGCGugaGCCg -3'
miRNA:   3'- cuCCaAGUGGCUG-----------CGAGGGCGUg--UGG- -5'
16418 3' -57.2 NC_004084.1 + 35333 0.71 0.348081
Target:  5'- cGAGG-UCGCCGACGUccaccUCgUCGCGuCGCCg -3'
miRNA:   3'- -CUCCaAGUGGCUGCG-----AG-GGCGU-GUGG- -5'
16418 3' -57.2 NC_004084.1 + 27960 0.7 0.390573
Target:  5'- cGGGGUUCACCcaccaGACGCgUgCGUucGCACCg -3'
miRNA:   3'- -CUCCAAGUGG-----CUGCGaGgGCG--UGUGG- -5'
16418 3' -57.2 NC_004084.1 + 25469 0.7 0.417643
Target:  5'- cGAGGUUCGCgGGCgGCgUCagaaggUGCGCGCCg -3'
miRNA:   3'- -CUCCAAGUGgCUG-CG-AGg-----GCGUGUGG- -5'
16418 3' -57.2 NC_004084.1 + 39925 0.7 0.426918
Target:  5'- aGAGGccUCGCUGAgGUUCCaCGUcgACACCu -3'
miRNA:   3'- -CUCCa-AGUGGCUgCGAGG-GCG--UGUGG- -5'
16418 3' -57.2 NC_004084.1 + 16665 0.69 0.436313
Target:  5'- gGAGGUccucgUCGCCGGCGUcgUCCCGaucguCAUCc -3'
miRNA:   3'- -CUCCA-----AGUGGCUGCG--AGGGCgu---GUGG- -5'
16418 3' -57.2 NC_004084.1 + 14617 0.69 0.455454
Target:  5'- ----cUC-CCGGCGCUCCuCGC-CGCCg -3'
miRNA:   3'- cuccaAGuGGCUGCGAGG-GCGuGUGG- -5'
16418 3' -57.2 NC_004084.1 + 41157 0.69 0.455454
Target:  5'- cGAGGgcaUCGCCGACuGCaccggccgcagaUCCUGCugcuuCACCg -3'
miRNA:   3'- -CUCCa--AGUGGCUG-CG------------AGGGCGu----GUGG- -5'
16418 3' -57.2 NC_004084.1 + 7368 0.69 0.484989
Target:  5'- -cGGUUCGcuCCGACGgugaUCCCGC-CugCg -3'
miRNA:   3'- cuCCAAGU--GGCUGCg---AGGGCGuGugG- -5'
16418 3' -57.2 NC_004084.1 + 29927 0.68 0.515407
Target:  5'- -----aCACCGGCGUugUCCUGCuCACCa -3'
miRNA:   3'- cuccaaGUGGCUGCG--AGGGCGuGUGG- -5'
16418 3' -57.2 NC_004084.1 + 32208 0.68 0.52572
Target:  5'- aGAGGagCGCCucgaGAUGCUCCuCGacgACGCCg -3'
miRNA:   3'- -CUCCaaGUGG----CUGCGAGG-GCg--UGUGG- -5'
16418 3' -57.2 NC_004084.1 + 30294 0.68 0.536109
Target:  5'- cGAGGacgUCAUUGACGCgCUCGUcgaggcGCACCc -3'
miRNA:   3'- -CUCCa--AGUGGCUGCGaGGGCG------UGUGG- -5'
16418 3' -57.2 NC_004084.1 + 30956 0.68 0.536109
Target:  5'- cGAGGa-CGCCGAcCGuCUCCCGCu--CCg -3'
miRNA:   3'- -CUCCaaGUGGCU-GC-GAGGGCGuguGG- -5'
16418 3' -57.2 NC_004084.1 + 2302 0.67 0.554983
Target:  5'- cGGGUcuggucgugcUCGCCGGagaucuuguugaGCUCCUGC-CGCCa -3'
miRNA:   3'- cUCCA----------AGUGGCUg-----------CGAGGGCGuGUGG- -5'
16418 3' -57.2 NC_004084.1 + 54561 0.67 0.578306
Target:  5'- cGGGGUUggaCACCGAgGUUCCgGUggaGCCg -3'
miRNA:   3'- -CUCCAA---GUGGCUgCGAGGgCGug-UGG- -5'
16418 3' -57.2 NC_004084.1 + 1838 0.67 0.578306
Target:  5'- --cGUUCACggUGugGCUCCUGCAgCGCg -3'
miRNA:   3'- cucCAAGUG--GCugCGAGGGCGU-GUGg -5'
16418 3' -57.2 NC_004084.1 + 19757 0.67 0.578306
Target:  5'- cGGGUacUACCGAgGCUCCCGacgaauaAgACCg -3'
miRNA:   3'- cUCCAa-GUGGCUgCGAGGGCg------UgUGG- -5'
16418 3' -57.2 NC_004084.1 + 29682 0.67 0.578306
Target:  5'- gGGGGUUCG-CGACGCggUCgCGgACGCUg -3'
miRNA:   3'- -CUCCAAGUgGCUGCG--AGgGCgUGUGG- -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.