miRNA display CGI


Results 1 - 20 of 20 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
11580 3' -57.2 NC_003085.1 + 29392 0.66 0.560919
Target:  5'- uGGcGGaGUUGCUGcgccagcgcGGCCAGCccAUGGCg -3'
miRNA:   3'- gUC-CC-CAACGAC---------CUGGUCGucUACCG- -5'
11580 3' -57.2 NC_003085.1 + 14908 0.66 0.539297
Target:  5'- gAGGaGUUGCgcaccGGccGCCAGCGcGUGGCg -3'
miRNA:   3'- gUCCcCAACGa----CC--UGGUCGUcUACCG- -5'
11580 3' -57.2 NC_003085.1 + 39531 0.66 0.539297
Target:  5'- gCAGGGGgcGgaGGuAUgGGUGGcgGGCa -3'
miRNA:   3'- -GUCCCCaaCgaCC-UGgUCGUCuaCCG- -5'
11580 3' -57.2 NC_003085.1 + 20106 0.66 0.539297
Target:  5'- gCAGGuGGcgggGCUGGAguCCGGCcuAGA-GGCg -3'
miRNA:   3'- -GUCC-CCaa--CGACCU--GGUCG--UCUaCCG- -5'
11580 3' -57.2 NC_003085.1 + 40691 0.66 0.535005
Target:  5'- gCAGGGGgacgacguccgggUGCUGGacgcGCCGGUGGAccucucgccGGCg -3'
miRNA:   3'- -GUCCCCa------------ACGACC----UGGUCGUCUa--------CCG- -5'
11580 3' -57.2 NC_003085.1 + 11627 0.67 0.496977
Target:  5'- gCAGGGGcUGCU--ACCAGCgcgcgcGGAgGGCa -3'
miRNA:   3'- -GUCCCCaACGAccUGGUCG------UCUaCCG- -5'
11580 3' -57.2 NC_003085.1 + 20253 0.67 0.486627
Target:  5'- cCAGGuGGcgcagucGCUGGugccuCCGGCGGAUgaGGCg -3'
miRNA:   3'- -GUCC-CCaa-----CGACCu----GGUCGUCUA--CCG- -5'
11580 3' -57.2 NC_003085.1 + 34701 0.67 0.486627
Target:  5'- aCAGGcgccGGUUGCaUGGcCaCGGCGGcgcGUGGCa -3'
miRNA:   3'- -GUCC----CCAACG-ACCuG-GUCGUC---UACCG- -5'
11580 3' -57.2 NC_003085.1 + 16983 0.68 0.436521
Target:  5'- aCGGGcGGggGCUGGGgU-GCgAGGUGGCu -3'
miRNA:   3'- -GUCC-CCaaCGACCUgGuCG-UCUACCG- -5'
11580 3' -57.2 NC_003085.1 + 23042 0.69 0.389516
Target:  5'- uGGGGGUggcaGaCUGGGCCGGCucguccGGCu -3'
miRNA:   3'- gUCCCCAa---C-GACCUGGUCGucua--CCG- -5'
11580 3' -57.2 NC_003085.1 + 38928 0.69 0.38052
Target:  5'- -cGGGGUUGCccggUGGACUcacuGGCGGcUGGg -3'
miRNA:   3'- guCCCCAACG----ACCUGG----UCGUCuACCg -5'
11580 3' -57.2 NC_003085.1 + 32138 0.69 0.354379
Target:  5'- aCGGGGGcgGCUGGugGCgCGGUGGGUuacGGCg -3'
miRNA:   3'- -GUCCCCaaCGACC--UG-GUCGUCUA---CCG- -5'
11580 3' -57.2 NC_003085.1 + 23441 0.7 0.349305
Target:  5'- -uGGGGUcgaagUGCUGGggcugcgccucggcgGCCGGCGGcgcuUGGCc -3'
miRNA:   3'- guCCCCA-----ACGACC---------------UGGUCGUCu---ACCG- -5'
11580 3' -57.2 NC_003085.1 + 21959 0.7 0.32953
Target:  5'- aGGGGGUggcuccGUUGGcUCAGCAGGUgcccGGCa -3'
miRNA:   3'- gUCCCCAa-----CGACCuGGUCGUCUA----CCG- -5'
11580 3' -57.2 NC_003085.1 + 43672 0.71 0.283762
Target:  5'- -cGGGGUUGCagcgGaGACgGGCAGAUGcGUc -3'
miRNA:   3'- guCCCCAACGa---C-CUGgUCGUCUAC-CG- -5'
11580 3' -57.2 NC_003085.1 + 48290 0.72 0.26283
Target:  5'- gAGGGGcUGC-GGA--GGCAGGUGGCc -3'
miRNA:   3'- gUCCCCaACGaCCUggUCGUCUACCG- -5'
11580 3' -57.2 NC_003085.1 + 43714 0.72 0.256137
Target:  5'- --cGGGcUGCUGGA--GGCGGAUGGCc -3'
miRNA:   3'- gucCCCaACGACCUggUCGUCUACCG- -5'
11580 3' -57.2 NC_003085.1 + 30225 0.77 0.109593
Target:  5'- gCGGGGGUgacguccUGCgUGGGCUgcuggggccggcGGCGGAUGGCg -3'
miRNA:   3'- -GUCCCCA-------ACG-ACCUGG------------UCGUCUACCG- -5'
11580 3' -57.2 NC_003085.1 + 34942 0.77 0.106827
Target:  5'- gCGGcGGaGUUGCUGG-CCGGCGGA-GGCg -3'
miRNA:   3'- -GUC-CC-CAACGACCuGGUCGUCUaCCG- -5'
11580 3' -57.2 NC_003085.1 + 29923 0.98 0.003337
Target:  5'- cCAGGGGUUGCUGGACCA-CAGAUGGCc -3'
miRNA:   3'- -GUCCCCAACGACCUGGUcGUCUACCG- -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.