miRNA display CGI


Results 1 - 20 of 54 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
23078 3' -58.5 NC_005178.1 + 333 0.7 0.265881
Target:  5'- gCUGucAGGUCCGGCGCugugCCGGUaGCgAUGGCg -3'
miRNA:   3'- -GGC--UCCAGGUCGUG----GGCUA-CG-UGCCG- -5'
23078 3' -58.5 NC_005178.1 + 2691 0.75 0.115222
Target:  5'- cCCGAGGcgUCCGGUcgggcggaauccaGCCCGGUGgugGCGGCg -3'
miRNA:   3'- -GGCUCC--AGGUCG-------------UGGGCUACg--UGCCG- -5'
23078 3' -58.5 NC_005178.1 + 2800 0.66 0.447532
Target:  5'- gCCGAGGaaguuguccucgaUCCGGCcgACCCGAacgACGGUu -3'
miRNA:   3'- -GGCUCC-------------AGGUCG--UGGGCUacgUGCCG- -5'
23078 3' -58.5 NC_005178.1 + 3054 0.67 0.429201
Target:  5'- gCCGaAGGUCCGcCGCCCGGacaUGagcguucccgaCugGGCg -3'
miRNA:   3'- -GGC-UCCAGGUcGUGGGCU---AC-----------GugCCG- -5'
23078 3' -58.5 NC_005178.1 + 3355 1.12 0.00021
Target:  5'- gCCGAGGUCCAGCACCCGAUGCACGGCc -3'
miRNA:   3'- -GGCUCCAGGUCGUGGGCUACGUGCCG- -5'
23078 3' -58.5 NC_005178.1 + 4546 0.75 0.122185
Target:  5'- aUCG-GGUCCGGCgugccGCUCGAUGUAgCGGCu -3'
miRNA:   3'- -GGCuCCAGGUCG-----UGGGCUACGU-GCCG- -5'
23078 3' -58.5 NC_005178.1 + 5317 0.67 0.383159
Target:  5'- gCCGAccUCCAGCGCCUGAaccuggagcUGUacaccgguGCGGCc -3'
miRNA:   3'- -GGCUccAGGUCGUGGGCU---------ACG--------UGCCG- -5'
23078 3' -58.5 NC_005178.1 + 5632 0.66 0.438794
Target:  5'- gCCGA--UCCAGCGauggCCGAUGaC-CGGCa -3'
miRNA:   3'- -GGCUccAGGUCGUg---GGCUAC-GuGCCG- -5'
23078 3' -58.5 NC_005178.1 + 5713 0.68 0.363111
Target:  5'- uCCucGGUCCAGCGacCCCGGaGCAgaucgccgcaucggUGGCg -3'
miRNA:   3'- -GGcuCCAGGUCGU--GGGCUaCGU--------------GCCG- -5'
23078 3' -58.5 NC_005178.1 + 6387 0.67 0.383159
Target:  5'- -aGAGGggcgUCuGCGCUCGAuUGuCGCGGCg -3'
miRNA:   3'- ggCUCCa---GGuCGUGGGCU-AC-GUGCCG- -5'
23078 3' -58.5 NC_005178.1 + 7033 0.67 0.407614
Target:  5'- cCCGAaGUCCGGCACCucgcccacauaccgCGA-GCGCuGCu -3'
miRNA:   3'- -GGCUcCAGGUCGUGG--------------GCUaCGUGcCG- -5'
23078 3' -58.5 NC_005178.1 + 7768 0.67 0.392103
Target:  5'- gCGGaGUCCAGU-CCUGGUGCGaGGCc -3'
miRNA:   3'- gGCUcCAGGUCGuGGGCUACGUgCCG- -5'
23078 3' -58.5 NC_005178.1 + 7849 0.79 0.058312
Target:  5'- gCGAGGUCCAGUGgcgcauccguccCCCGuccgugacuGUGCGCGGCg -3'
miRNA:   3'- gGCUCCAGGUCGU------------GGGC---------UACGUGCCG- -5'
23078 3' -58.5 NC_005178.1 + 7988 0.67 0.399355
Target:  5'- cCCGAGGccgUCCaggGGCugCCGggGCugacccugacacCGGCa -3'
miRNA:   3'- -GGCUCC---AGG---UCGugGGCuaCGu-----------GCCG- -5'
23078 3' -58.5 NC_005178.1 + 8137 0.68 0.365685
Target:  5'- aCCGAG--CCAGCGCCCGGcgggauCGCGGa -3'
miRNA:   3'- -GGCUCcaGGUCGUGGGCUac----GUGCCg -5'
23078 3' -58.5 NC_005178.1 + 8573 0.69 0.323665
Target:  5'- gCCGcccAGG-CCAGgggcgcgcaggguCACCUGgcGCACGGCg -3'
miRNA:   3'- -GGC---UCCaGGUC-------------GUGGGCuaCGUGCCG- -5'
23078 3' -58.5 NC_005178.1 + 8980 0.77 0.092222
Target:  5'- gCGGGGaaugCCGGCGacgccCCCGGUgGCGCGGCg -3'
miRNA:   3'- gGCUCCa---GGUCGU-----GGGCUA-CGUGCCG- -5'
23078 3' -58.5 NC_005178.1 + 9059 0.69 0.299191
Target:  5'- uUGAuGUCCAGCAgcagcggaguaagcCCUGGcUGCAUGGCg -3'
miRNA:   3'- gGCUcCAGGUCGU--------------GGGCU-ACGUGCCG- -5'
23078 3' -58.5 NC_005178.1 + 12015 0.68 0.332415
Target:  5'- gCCGAGGUCUuccgaaugaccuGGCGCCUcg-GCuuGGCc -3'
miRNA:   3'- -GGCUCCAGG------------UCGUGGGcuaCGugCCG- -5'
23078 3' -58.5 NC_005178.1 + 12191 0.67 0.401181
Target:  5'- aCUGAagacGGUCCAGgACaCCa--GCGCGGCu -3'
miRNA:   3'- -GGCU----CCAGGUCgUG-GGcuaCGUGCCG- -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.