miRNA display CGI


Results 1 - 20 of 21 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
18741 3' -57.8 NC_004682.1 + 47751 0.66 0.568167
Target:  5'- cGCGGUGgugggguagcCGGGcUgGCUCGCGCCc -3'
miRNA:   3'- uUGCCGCaa--------GCUCuAgCGAGCGCGGc -5'
18741 3' -57.8 NC_004682.1 + 42143 0.67 0.515342
Target:  5'- cGAUGaGCGcgUCGuGGAUCGCUCG-GCCc -3'
miRNA:   3'- -UUGC-CGCa-AGC-UCUAGCGAGCgCGGc -5'
18741 3' -57.8 NC_004682.1 + 10641 0.67 0.474559
Target:  5'- gGGCGGCGggauggucgcCGAGAUCGCaccUCGCuacCCGg -3'
miRNA:   3'- -UUGCCGCaa--------GCUCUAGCG---AGCGc--GGC- -5'
18741 3' -57.8 NC_004682.1 + 43895 0.67 0.474559
Target:  5'- cGCGGUGUUCGugaAGAaCGCagCGUGUCGa -3'
miRNA:   3'- uUGCCGCAAGC---UCUaGCGa-GCGCGGC- -5'
18741 3' -57.8 NC_004682.1 + 15692 0.68 0.454779
Target:  5'- cGCGGCGaUgGAGAUCGaccacgccaUCGCGCa- -3'
miRNA:   3'- uUGCCGCaAgCUCUAGCg--------AGCGCGgc -5'
18741 3' -57.8 NC_004682.1 + 47104 0.68 0.454779
Target:  5'- gGACGGCGUagUCaGuGAUgGCUCagGCGUCGa -3'
miRNA:   3'- -UUGCCGCA--AG-CuCUAgCGAG--CGCGGC- -5'
18741 3' -57.8 NC_004682.1 + 34582 0.68 0.445058
Target:  5'- cGACGGUGacaccgCGAccagcGGUCGCUCGCaucGCCGc -3'
miRNA:   3'- -UUGCCGCaa----GCU-----CUAGCGAGCG---CGGC- -5'
18741 3' -57.8 NC_004682.1 + 34646 0.68 0.445058
Target:  5'- uGCGGCcUUCGAGuUCaGaUUCGCGCCa -3'
miRNA:   3'- uUGCCGcAAGCUCuAG-C-GAGCGCGGc -5'
18741 3' -57.8 NC_004682.1 + 12755 0.68 0.435455
Target:  5'- cAACGGCGaucucgUUGAGGUCGCg-GUGaCCGg -3'
miRNA:   3'- -UUGCCGCa-----AGCUCUAGCGagCGC-GGC- -5'
18741 3' -57.8 NC_004682.1 + 23699 0.68 0.425972
Target:  5'- -cUGGCGUcgaccuUCG-GGUCGCUgGCGaCCGa -3'
miRNA:   3'- uuGCCGCA------AGCuCUAGCGAgCGC-GGC- -5'
18741 3' -57.8 NC_004682.1 + 44637 0.69 0.389306
Target:  5'- uGCGGCGUUCGua----CUCGCGCUGa -3'
miRNA:   3'- uUGCCGCAAGCucuagcGAGCGCGGC- -5'
18741 3' -57.8 NC_004682.1 + 34444 0.69 0.371765
Target:  5'- gGGCGaGCGUcaUCuGGuUCaGCUCGCGCCGg -3'
miRNA:   3'- -UUGC-CGCA--AGcUCuAG-CGAGCGCGGC- -5'
18741 3' -57.8 NC_004682.1 + 38041 0.69 0.363199
Target:  5'- uGGCGGCGUcgggGGGAUCGCUUGggggagGCCGg -3'
miRNA:   3'- -UUGCCGCAag--CUCUAGCGAGCg-----CGGC- -5'
18741 3' -57.8 NC_004682.1 + 22717 0.7 0.346481
Target:  5'- -uCGGC-UUCGAGGUcucuguccgCGCUCGCcGCCGc -3'
miRNA:   3'- uuGCCGcAAGCUCUA---------GCGAGCG-CGGC- -5'
18741 3' -57.8 NC_004682.1 + 38810 0.71 0.292383
Target:  5'- -uCGGCGggacugUCGGGAagGCU-GCGCCGg -3'
miRNA:   3'- uuGCCGCa-----AGCUCUagCGAgCGCGGC- -5'
18741 3' -57.8 NC_004682.1 + 20703 0.71 0.271301
Target:  5'- --gGGCGcUCagGAGAUCGCUCGCcugaugGCCGa -3'
miRNA:   3'- uugCCGCaAG--CUCUAGCGAGCG------CGGC- -5'
18741 3' -57.8 NC_004682.1 + 40919 0.72 0.238906
Target:  5'- uGGCGGCGUacgUCGGcGUCGacggaUCGCGCCa -3'
miRNA:   3'- -UUGCCGCA---AGCUcUAGCg----AGCGCGGc -5'
18741 3' -57.8 NC_004682.1 + 17824 0.73 0.221063
Target:  5'- aGAUGGCGggCucGGUCaucaaGCUCGCGCCGa -3'
miRNA:   3'- -UUGCCGCaaGcuCUAG-----CGAGCGCGGC- -5'
18741 3' -57.8 NC_004682.1 + 35382 0.74 0.188777
Target:  5'- -cUGGCG-UCGAGGUCGUccucuUCGCGCUGc -3'
miRNA:   3'- uuGCCGCaAGCUCUAGCG-----AGCGCGGC- -5'
18741 3' -57.8 NC_004682.1 + 35967 0.79 0.089864
Target:  5'- --aGGCGUggUCGAGG-CGUUCGCGCCGu -3'
miRNA:   3'- uugCCGCA--AGCUCUaGCGAGCGCGGC- -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.