miRNA display CGI


Results 1 - 20 of 24 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
11502 3' -58.9 NC_003085.1 + 40333 0.66 0.495342
Target:  5'- -aGGUGcCGCUCCCagagagGUCGCgaCAGCa -3'
miRNA:   3'- caCCGUaGUGAGGGga----CAGCGg-GUCG- -5'
11502 3' -58.9 NC_003085.1 + 33416 0.66 0.485159
Target:  5'- cGUGGCG-CACgUCCCauaccUCGCCC-GCa -3'
miRNA:   3'- -CACCGUaGUG-AGGGgac--AGCGGGuCG- -5'
11502 3' -58.9 NC_003085.1 + 27707 0.66 0.485159
Target:  5'- -gGGCGUC-CgCCCgCUGUCGCgCCucguuGCu -3'
miRNA:   3'- caCCGUAGuGaGGG-GACAGCG-GGu----CG- -5'
11502 3' -58.9 NC_003085.1 + 33099 0.66 0.484146
Target:  5'- -aGGC-UCACUCCUggguggcgCUGUCGaacgcucCCUAGCg -3'
miRNA:   3'- caCCGuAGUGAGGG--------GACAGC-------GGGUCG- -5'
11502 3' -58.9 NC_003085.1 + 8401 0.66 0.475077
Target:  5'- -cGGCA--GC-CCCCaGUCGCgUAGCa -3'
miRNA:   3'- caCCGUagUGaGGGGaCAGCGgGUCG- -5'
11502 3' -58.9 NC_003085.1 + 671 0.66 0.475077
Target:  5'- -cGGaCGUCGCcggCCaCCUGUCccgcGUCCGGCc -3'
miRNA:   3'- caCC-GUAGUGa--GG-GGACAG----CGGGUCG- -5'
11502 3' -58.9 NC_003085.1 + 49113 0.66 0.455234
Target:  5'- -cGGCGcUCA-UCCCUUGcCGCCCuucuuGGCg -3'
miRNA:   3'- caCCGU-AGUgAGGGGACaGCGGG-----UCG- -5'
11502 3' -58.9 NC_003085.1 + 33823 0.66 0.455234
Target:  5'- cGUGGCGUCGCgCUCCUucucCGCCCu-- -3'
miRNA:   3'- -CACCGUAGUGaGGGGAca--GCGGGucg -5'
11502 3' -58.9 NC_003085.1 + 29579 0.66 0.455234
Target:  5'- -cGGUAgcccuucgCGCUCgCCCaGcCGUCCAGCa -3'
miRNA:   3'- caCCGUa-------GUGAG-GGGaCaGCGGGUCG- -5'
11502 3' -58.9 NC_003085.1 + 1818 0.66 0.455234
Target:  5'- cUGGUG-CGC-CCCCUGUugaagCGCaCCGGCu -3'
miRNA:   3'- cACCGUaGUGaGGGGACA-----GCG-GGUCG- -5'
11502 3' -58.9 NC_003085.1 + 46824 0.66 0.455234
Target:  5'- -cGGCAUCACcucgCCgCCgaGUUGCgacgCCAGCg -3'
miRNA:   3'- caCCGUAGUGa---GG-GGa-CAGCG----GGUCG- -5'
11502 3' -58.9 NC_003085.1 + 2819 0.66 0.445482
Target:  5'- -cGGCAUCACUggCaacacGUCuGCCCGGCa -3'
miRNA:   3'- caCCGUAGUGAggGga---CAG-CGGGUCG- -5'
11502 3' -58.9 NC_003085.1 + 38157 0.67 0.435848
Target:  5'- gGUGGUggCGCUCCCC----GCCgCGGCg -3'
miRNA:   3'- -CACCGuaGUGAGGGGacagCGG-GUCG- -5'
11502 3' -58.9 NC_003085.1 + 45328 0.68 0.34991
Target:  5'- -gGGCAUCGCUaacgaggucggcCCCCagguggcuggcagccUGgacCGCCCGGCc -3'
miRNA:   3'- caCCGUAGUGA------------GGGG---------------ACa--GCGGGUCG- -5'
11502 3' -58.9 NC_003085.1 + 38797 0.69 0.330396
Target:  5'- ---uCGUCGCUgCgCUGUCGCUCAGCc -3'
miRNA:   3'- caccGUAGUGAgGgGACAGCGGGUCG- -5'
11502 3' -58.9 NC_003085.1 + 46454 0.7 0.278126
Target:  5'- -gGGCGUCG--UCCgUG-CGCCCAGCg -3'
miRNA:   3'- caCCGUAGUgaGGGgACaGCGGGUCG- -5'
11502 3' -58.9 NC_003085.1 + 42510 0.7 0.264454
Target:  5'- -gGGCAUCGCUgCCgaaGUCgaccGCCCAGCc -3'
miRNA:   3'- caCCGUAGUGAgGGga-CAG----CGGGUCG- -5'
11502 3' -58.9 NC_003085.1 + 40934 0.7 0.264454
Target:  5'- aUGGCGUCACcgccuUCgCCUG-CGCCC-GCu -3'
miRNA:   3'- cACCGUAGUG-----AGgGGACaGCGGGuCG- -5'
11502 3' -58.9 NC_003085.1 + 33347 0.71 0.238752
Target:  5'- -gGGCGUCGacCUCCaggaUGUCGCCCuucAGCg -3'
miRNA:   3'- caCCGUAGU--GAGGgg--ACAGCGGG---UCG- -5'
11502 3' -58.9 NC_003085.1 + 7928 0.71 0.232059
Target:  5'- -cGGCAgcagacgUCACUCCaCCgGUagCGCCCGGUa -3'
miRNA:   3'- caCCGU-------AGUGAGG-GGaCA--GCGGGUCG- -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.