miRNA display CGI


Results 1 - 18 of 18 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
18508 3' -56.6 NC_004681.1 + 25334 0.66 0.761313
Target:  5'- gCCgCGGGCGCcauggccgccguuguUGAAgaagcGGUC-GCCGCCGUu -3'
miRNA:   3'- -GG-GUCUGCG---------------ACUU-----CCAGaUGGCGGCA- -5'
18508 3' -56.6 NC_004681.1 + 701 0.66 0.75736
Target:  5'- aUCgAGGgGCcaUGcGAGGUCUGCCuGCCGg -3'
miRNA:   3'- -GGgUCUgCG--AC-UUCCAGAUGG-CGGCa -5'
18508 3' -56.6 NC_004681.1 + 38953 0.66 0.73732
Target:  5'- uCCUucGACGCaGAaguucAGGUagcccuccacgCUGCCGCCGUa -3'
miRNA:   3'- -GGGu-CUGCGaCU-----UCCA-----------GAUGGCGGCA- -5'
18508 3' -56.6 NC_004681.1 + 33516 0.66 0.727148
Target:  5'- cCCgCAGGCGgUGAAGGccaUCgagACCGUCa- -3'
miRNA:   3'- -GG-GUCUGCgACUUCC---AGa--UGGCGGca -5'
18508 3' -56.6 NC_004681.1 + 65643 0.67 0.696142
Target:  5'- gCCGGAagagGCUGAAGGUUUcaaccACUGCgCGUu -3'
miRNA:   3'- gGGUCUg---CGACUUCCAGA-----UGGCG-GCA- -5'
18508 3' -56.6 NC_004681.1 + 6652 0.67 0.696142
Target:  5'- aCCCcGACGacCUGGAGGacaUCuUGCuCGCCGUg -3'
miRNA:   3'- -GGGuCUGC--GACUUCC---AG-AUG-GCGGCA- -5'
18508 3' -56.6 NC_004681.1 + 28105 0.67 0.675168
Target:  5'- gCCAc-CGCUGGuAGGacuaCUGCCGCCGUu -3'
miRNA:   3'- gGGUcuGCGACU-UCCa---GAUGGCGGCA- -5'
18508 3' -56.6 NC_004681.1 + 64707 0.67 0.664619
Target:  5'- cCCCAuGACGCUGguGGgu--CCGCCc- -3'
miRNA:   3'- -GGGU-CUGCGACuuCCagauGGCGGca -5'
18508 3' -56.6 NC_004681.1 + 68901 0.67 0.664619
Target:  5'- aUCgAGGCGCUGAccaucGUCacgGCCGCCGc -3'
miRNA:   3'- -GGgUCUGCGACUuc---CAGa--UGGCGGCa -5'
18508 3' -56.6 NC_004681.1 + 18413 0.67 0.664619
Target:  5'- aCCGGACGaaccgGAAGGcugCUgACCGCCa- -3'
miRNA:   3'- gGGUCUGCga---CUUCCa--GA-UGGCGGca -5'
18508 3' -56.6 NC_004681.1 + 27688 0.68 0.643446
Target:  5'- aCCCAGGCGcCUGu-GGUgcCUGCCGguaCCGg -3'
miRNA:   3'- -GGGUCUGC-GACuuCCA--GAUGGC---GGCa -5'
18508 3' -56.6 NC_004681.1 + 16023 0.68 0.63284
Target:  5'- uCCCGGcUGCUGGcaAGGgc-GCCGCCGc -3'
miRNA:   3'- -GGGUCuGCGACU--UCCagaUGGCGGCa -5'
18508 3' -56.6 NC_004681.1 + 46404 0.68 0.611636
Target:  5'- gCCCAcGAUGCaGGAuGG-CUGcCCGCCGUg -3'
miRNA:   3'- -GGGU-CUGCGaCUU-CCaGAU-GGCGGCA- -5'
18508 3' -56.6 NC_004681.1 + 18504 0.69 0.579973
Target:  5'- aUCCGGGUGC-GAAGGcgUUUGCCGCCGc -3'
miRNA:   3'- -GGGUCUGCGaCUUCC--AGAUGGCGGCa -5'
18508 3' -56.6 NC_004681.1 + 55111 0.69 0.573678
Target:  5'- cCCCGGGCGCgaccUGAAGGcacuucaggccgagCUugCGCCa- -3'
miRNA:   3'- -GGGUCUGCG----ACUUCCa-------------GAugGCGGca -5'
18508 3' -56.6 NC_004681.1 + 31372 0.76 0.222025
Target:  5'- gCCAGAUGCUGuuGAGGUCUccgacGuuGCCGUa -3'
miRNA:   3'- gGGUCUGCGAC--UUCCAGA-----UggCGGCA- -5'
18508 3' -56.6 NC_004681.1 + 39992 0.77 0.216454
Target:  5'- gCCGcGCGCUGggGGUCU-CCGCCc- -3'
miRNA:   3'- gGGUcUGCGACuuCCAGAuGGCGGca -5'
18508 3' -56.6 NC_004681.1 + 59100 1.1 0.00111
Target:  5'- cCCCAGACGCUGAAGGUCUACCGCCGUg -3'
miRNA:   3'- -GGGUCUGCGACUUCCAGAUGGCGGCA- -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.