miRNA display CGI


Results 1 - 16 of 16 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
28351 3' -57.9 NC_005946.1 + 44313 0.66 0.774807
Target:  5'- aGGGCuGGGUGGAGGccccuGUUugCGGUg -3'
miRNA:   3'- gUUUG-CCCACCUCCucu--CGGugGCCG- -5'
28351 3' -57.9 NC_005946.1 + 36254 0.66 0.755727
Target:  5'- -uGGCGGGUcuGGGGGGAGCgGCCu-- -3'
miRNA:   3'- guUUGCCCAc-CUCCUCUCGgUGGccg -5'
28351 3' -57.9 NC_005946.1 + 103768 0.66 0.752825
Target:  5'- gAGACGGGgcugacguacccauUGGAGGGGuAGCUGCCc-- -3'
miRNA:   3'- gUUUGCCC--------------ACCUCCUC-UCGGUGGccg -5'
28351 3' -57.9 NC_005946.1 + 83881 0.66 0.746016
Target:  5'- aAGACaGGGU-GAGGGGGGCCgugUGGCc -3'
miRNA:   3'- gUUUG-CCCAcCUCCUCUCGGug-GCCG- -5'
28351 3' -57.9 NC_005946.1 + 4359 0.66 0.746016
Target:  5'- uGAGCaGGGaGGAcaugucuacguuGGAGGGCCACCccGCg -3'
miRNA:   3'- gUUUG-CCCaCCU------------CCUCUCGGUGGc-CG- -5'
28351 3' -57.9 NC_005946.1 + 46867 0.66 0.746016
Target:  5'- -uGACuGGGUuccaGGccaggaaccuAGGAGAGCUGCCGGg -3'
miRNA:   3'- guUUG-CCCA----CC----------UCCUCUCGGUGGCCg -5'
28351 3' -57.9 NC_005946.1 + 94927 0.67 0.679821
Target:  5'- -uGACGaGUuuaaggcuuuuaugcGGAGGAGAGCC-CCGGa -3'
miRNA:   3'- guUUGCcCA---------------CCUCCUCUCGGuGGCCg -5'
28351 3' -57.9 NC_005946.1 + 98547 0.68 0.665467
Target:  5'- cCGGAUGGGUGGGGGu---CCugCaGGCu -3'
miRNA:   3'- -GUUUGCCCACCUCCucucGGugG-CCG- -5'
28351 3' -57.9 NC_005946.1 + 93827 0.68 0.65518
Target:  5'- gGGACGGGgugugGGAGGAaAGCUcCUGGa -3'
miRNA:   3'- gUUUGCCCa----CCUCCUcUCGGuGGCCg -5'
28351 3' -57.9 NC_005946.1 + 13892 0.69 0.607747
Target:  5'- cCGAGaGGGUcaGGGGGAGggugagcuaccucaaAGCCGCCaGGCc -3'
miRNA:   3'- -GUUUgCCCA--CCUCCUC---------------UCGGUGG-CCG- -5'
28351 3' -57.9 NC_005946.1 + 83722 0.69 0.572894
Target:  5'- --cGCGGGUGGGGGgcgauccaGGAGuCCACCu-- -3'
miRNA:   3'- guuUGCCCACCUCC--------UCUC-GGUGGccg -5'
28351 3' -57.9 NC_005946.1 + 3455 0.7 0.54254
Target:  5'- gGGGCGGGUGuAGGGGucuaCGCCGGUc -3'
miRNA:   3'- gUUUGCCCACcUCCUCucg-GUGGCCG- -5'
28351 3' -57.9 NC_005946.1 + 103060 0.72 0.401588
Target:  5'- ----aGGGUGGAGuGGGAGCCAgggGGCu -3'
miRNA:   3'- guuugCCCACCUC-CUCUCGGUgg-CCG- -5'
28351 3' -57.9 NC_005946.1 + 7365 0.72 0.401588
Target:  5'- --cGCGGaUGcGAGGAGGuGCaCGCCGGCa -3'
miRNA:   3'- guuUGCCcAC-CUCCUCU-CG-GUGGCCG- -5'
28351 3' -57.9 NC_005946.1 + 13843 0.73 0.357601
Target:  5'- --cGCGGGUcuuacauuugccggGGAGGugcuuGGAGgCACCGGCa -3'
miRNA:   3'- guuUGCCCA--------------CCUCC-----UCUCgGUGGCCG- -5'
28351 3' -57.9 NC_005946.1 + 13473 1.11 0.000881
Target:  5'- gCAAACGGGUGGAGGAGAGCCACCGGCa -3'
miRNA:   3'- -GUUUGCCCACCUCCUCUCGGUGGCCG- -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.