miRNA display CGI


Results 1 - 15 of 15 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
23341 3' -59.9 NC_005259.1 + 36307 0.66 0.54578
Target:  5'- gAGCG-CUuGGGCGgGCGGGAUCauguUGGc -3'
miRNA:   3'- -UCGCaGGuUCCGCgCGCUCUGGg---ACC- -5'
23341 3' -59.9 NC_005259.1 + 55903 0.66 0.525516
Target:  5'- cGCG-CCGGGGuCGCugGCcAGACCgCUGGu -3'
miRNA:   3'- uCGCaGGUUCC-GCG--CGcUCUGG-GACC- -5'
23341 3' -59.9 NC_005259.1 + 8275 0.67 0.47622
Target:  5'- aGGUGUuguaCC-GGGUGCGCGGGcACCCgcacGGa -3'
miRNA:   3'- -UCGCA----GGuUCCGCGCGCUC-UGGGa---CC- -5'
23341 3' -59.9 NC_005259.1 + 10463 0.67 0.466634
Target:  5'- cGGUGUCCu--GCGCaGCGGGACgauCUUGGg -3'
miRNA:   3'- -UCGCAGGuucCGCG-CGCUCUG---GGACC- -5'
23341 3' -59.9 NC_005259.1 + 6663 0.68 0.42933
Target:  5'- gGGUGUCCGuGaCGCGCGAGcuGCCCg-- -3'
miRNA:   3'- -UCGCAGGUuCcGCGCGCUC--UGGGacc -5'
23341 3' -59.9 NC_005259.1 + 42451 0.68 0.402535
Target:  5'- cGGCGUCCAacAGuCGCcgacuacgGCGAGGCCC-GGc -3'
miRNA:   3'- -UCGCAGGU--UCcGCG--------CGCUCUGGGaCC- -5'
23341 3' -59.9 NC_005259.1 + 767 0.68 0.402535
Target:  5'- cGCGUCCAccGCGC-CGAGgcggcuGCCCUcGGu -3'
miRNA:   3'- uCGCAGGUucCGCGcGCUC------UGGGA-CC- -5'
23341 3' -59.9 NC_005259.1 + 60327 0.68 0.40166
Target:  5'- gGGCGUguugacgcUCAAGGCgGCGaucagguCGAGGCCCUGc -3'
miRNA:   3'- -UCGCA--------GGUUCCG-CGC-------GCUCUGGGACc -5'
23341 3' -59.9 NC_005259.1 + 47795 0.69 0.376825
Target:  5'- cAGCgGUCCGAcGGUGaguCGCGAGACCUcgcGGg -3'
miRNA:   3'- -UCG-CAGGUU-CCGC---GCGCUCUGGGa--CC- -5'
23341 3' -59.9 NC_005259.1 + 28974 0.69 0.376825
Target:  5'- cGGUG-CCGAGGC-CGCGAGcGCCCg-- -3'
miRNA:   3'- -UCGCaGGUUCCGcGCGCUC-UGGGacc -5'
23341 3' -59.9 NC_005259.1 + 7032 0.69 0.352244
Target:  5'- gAGCGcCCcggcGGGGUuuuucguuGCGCGAGAUCCUGu -3'
miRNA:   3'- -UCGCaGG----UUCCG--------CGCGCUCUGGGACc -5'
23341 3' -59.9 NC_005259.1 + 38328 0.72 0.259184
Target:  5'- uGGUGcCCGAGuuGCGCGAguaGACCCUGa -3'
miRNA:   3'- -UCGCaGGUUCcgCGCGCU---CUGGGACc -5'
23341 3' -59.9 NC_005259.1 + 64019 0.77 0.119962
Target:  5'- cGCGcCCGAGGCGCgGCGAGGCCg--- -3'
miRNA:   3'- uCGCaGGUUCCGCG-CGCUCUGGgacc -5'
23341 3' -59.9 NC_005259.1 + 47911 0.77 0.116802
Target:  5'- gAGCG-CCuugauGGCGuCGcCGAGGCCCUGGa -3'
miRNA:   3'- -UCGCaGGuu---CCGC-GC-GCUCUGGGACC- -5'
23341 3' -59.9 NC_005259.1 + 2939 1.09 0.000527
Target:  5'- aAGCGUCCAAGGCGCGCGAGACCCUGGc -3'
miRNA:   3'- -UCGCAGGUUCCGCGCGCUCUGGGACC- -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.