miRNA display CGI


Results 1 - 20 of 21 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
18301 5' -56.2 NC_004681.1 + 22471 0.66 0.776601
Target:  5'- cCACUCGaCGUCGggGAGGUCCU-CGc -3'
miRNA:   3'- -GUGGGCgGCGGCuaCUUCAGGAaGUc -5'
18301 5' -56.2 NC_004681.1 + 37808 0.66 0.776601
Target:  5'- aGCCUGCUGCCcugauggucGGUGAGGUUgaUCAc -3'
miRNA:   3'- gUGGGCGGCGG---------CUACUUCAGgaAGUc -5'
18301 5' -56.2 NC_004681.1 + 41068 0.66 0.763829
Target:  5'- gGCgCCGCCGCCGAUGugcucaccgaacgCCU-CAGc -3'
miRNA:   3'- gUG-GGCGGCGGCUACuuca---------GGAaGUC- -5'
18301 5' -56.2 NC_004681.1 + 21340 0.66 0.755859
Target:  5'- gGCUgGCCGUgaGAUgcagaccGAGGUCCUUUAGg -3'
miRNA:   3'- gUGGgCGGCGg-CUA-------CUUCAGGAAGUC- -5'
18301 5' -56.2 NC_004681.1 + 14983 0.66 0.736637
Target:  5'- aCAUCgaGCCGgUGAUGAAGaCCUUCGc -3'
miRNA:   3'- -GUGGg-CGGCgGCUACUUCaGGAAGUc -5'
18301 5' -56.2 NC_004681.1 + 60211 0.66 0.736637
Target:  5'- aACCCGCUGCCguacagccaggcGAUGGAGUCa----- -3'
miRNA:   3'- gUGGGCGGCGG------------CUACUUCAGgaaguc -5'
18301 5' -56.2 NC_004681.1 + 60202 0.66 0.726371
Target:  5'- gCACCCGCCGCgCGggGAucacgCCUaguggCGGa -3'
miRNA:   3'- -GUGGGCGGCG-GCuaCUuca--GGAa----GUC- -5'
18301 5' -56.2 NC_004681.1 + 61666 0.67 0.716017
Target:  5'- aAgCCGCCGCCGcgGAGG-CCg---- -3'
miRNA:   3'- gUgGGCGGCGGCuaCUUCaGGaaguc -5'
18301 5' -56.2 NC_004681.1 + 11859 0.67 0.716017
Target:  5'- aAgCgGCCaCCGggGAAGUCCUcgcUCAGg -3'
miRNA:   3'- gUgGgCGGcGGCuaCUUCAGGA---AGUC- -5'
18301 5' -56.2 NC_004681.1 + 17988 0.67 0.716017
Target:  5'- --gCCGCCGCCGcccagGAAuUCCUUCuGg -3'
miRNA:   3'- gugGGCGGCGGCua---CUUcAGGAAGuC- -5'
18301 5' -56.2 NC_004681.1 + 7376 0.67 0.673921
Target:  5'- aGCCCGCgGCCGAgaaGAagcccccgcccaAGUCCgUCGa -3'
miRNA:   3'- gUGGGCGgCGGCUa--CU------------UCAGGaAGUc -5'
18301 5' -56.2 NC_004681.1 + 51156 0.67 0.663279
Target:  5'- cCACCCcaggaccuaGCCGCCGAgucaGcAGUCC-UCGGc -3'
miRNA:   3'- -GUGGG---------CGGCGGCUa---CuUCAGGaAGUC- -5'
18301 5' -56.2 NC_004681.1 + 26357 0.68 0.652609
Target:  5'- ---aUGCCGCCGA-GGAGUCCgUCAu -3'
miRNA:   3'- guggGCGGCGGCUaCUUCAGGaAGUc -5'
18301 5' -56.2 NC_004681.1 + 2124 0.68 0.641921
Target:  5'- cCACCC-CCGCUGAUGuGGUaacCCggCAGg -3'
miRNA:   3'- -GUGGGcGGCGGCUACuUCA---GGaaGUC- -5'
18301 5' -56.2 NC_004681.1 + 51682 0.68 0.609843
Target:  5'- aGCCCGuuGCCGGUGGGuugcUCCaccUCGGa -3'
miRNA:   3'- gUGGGCggCGGCUACUUc---AGGa--AGUC- -5'
18301 5' -56.2 NC_004681.1 + 24935 0.71 0.436797
Target:  5'- cCGCCCGCgccgccgaCGCCGAUGAGGUCg----- -3'
miRNA:   3'- -GUGGGCG--------GCGGCUACUUCAGgaaguc -5'
18301 5' -56.2 NC_004681.1 + 11960 0.72 0.409127
Target:  5'- aACCUGCCGCUGGaGAAGUCCc---- -3'
miRNA:   3'- gUGGGCGGCGGCUaCUUCAGGaaguc -5'
18301 5' -56.2 NC_004681.1 + 15313 0.77 0.197413
Target:  5'- aCGCCCaGCgGgCCGAcguUGggGUCCUUCAGc -3'
miRNA:   3'- -GUGGG-CGgC-GGCU---ACuuCAGGAAGUC- -5'
18301 5' -56.2 NC_004681.1 + 56787 0.79 0.16424
Target:  5'- aGCUCGCCGUagaCGAUGAAG-CCUUCGGg -3'
miRNA:   3'- gUGGGCGGCG---GCUACUUCaGGAAGUC- -5'
18301 5' -56.2 NC_004681.1 + 22044 0.81 0.11256
Target:  5'- aCGCCgGCCGCCGAcgaaGAGGUCCUUCc- -3'
miRNA:   3'- -GUGGgCGGCGGCUa---CUUCAGGAAGuc -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.