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
12559 3' -58.8 NC_003345.1 + 49263 0.66 0.688592
Target:  5'- -aGCGAGG-ACGcUCCCGACCaCGUu- -3'
miRNA:   3'- ggUGCUCCuUGCaGGGGCUGG-GCGuc -5'
12559 3' -58.8 NC_003345.1 + 60917 0.66 0.688592
Target:  5'- gCCAU----AACGUCCCCGGCCUGaAGg -3'
miRNA:   3'- -GGUGcuccUUGCAGGGGCUGGGCgUC- -5'
12559 3' -58.8 NC_003345.1 + 59373 0.66 0.678383
Target:  5'- -aGCGAGGuAGCcaCCaCCGACCaGCAGa -3'
miRNA:   3'- ggUGCUCC-UUGcaGG-GGCUGGgCGUC- -5'
12559 3' -58.8 NC_003345.1 + 13429 0.66 0.678383
Target:  5'- aCCACGAagugugugGGAACGagacUCCCGGCCCcCGa -3'
miRNA:   3'- -GGUGCU--------CCUUGCa---GGGGCUGGGcGUc -5'
12559 3' -58.8 NC_003345.1 + 4252 0.66 0.678383
Target:  5'- uCCACGAGaGGCaGUCUCCGGuguCCCaCAGg -3'
miRNA:   3'- -GGUGCUCcUUG-CAGGGGCU---GGGcGUC- -5'
12559 3' -58.8 NC_003345.1 + 31511 0.66 0.657856
Target:  5'- uCCG-GGGGAACGUagcaaCCCGACCU-CGGu -3'
miRNA:   3'- -GGUgCUCCUUGCAg----GGGCUGGGcGUC- -5'
12559 3' -58.8 NC_003345.1 + 74553 0.67 0.637246
Target:  5'- aUAgGuGGAAUGgccgCCCCGACCUccuuGCGGa -3'
miRNA:   3'- gGUgCuCCUUGCa---GGGGCUGGG----CGUC- -5'
12559 3' -58.8 NC_003345.1 + 63386 0.67 0.62693
Target:  5'- uCCACGAGGucaa-CCgCGACCgCGUAGa -3'
miRNA:   3'- -GGUGCUCCuugcaGGgGCUGG-GCGUC- -5'
12559 3' -58.8 NC_003345.1 + 30628 0.67 0.616618
Target:  5'- uUugGAGG--CGUCCCgUGGCCCGUg- -3'
miRNA:   3'- gGugCUCCuuGCAGGG-GCUGGGCGuc -5'
12559 3' -58.8 NC_003345.1 + 2421 0.68 0.545181
Target:  5'- uCCGCGAGGGGCuUCacaCCGAaUCCGCc- -3'
miRNA:   3'- -GGUGCUCCUUGcAGg--GGCU-GGGCGuc -5'
12559 3' -58.8 NC_003345.1 + 22088 0.68 0.545181
Target:  5'- cCCACGAcGaGAACGgcgaCCCCGuugacgACCCGgAGg -3'
miRNA:   3'- -GGUGCU-C-CUUGCa---GGGGC------UGGGCgUC- -5'
12559 3' -58.8 NC_003345.1 + 2764 0.7 0.457804
Target:  5'- aCUACGAGGAACacaucgagcUUCCCGAgCCGgAGg -3'
miRNA:   3'- -GGUGCUCCUUGc--------AGGGGCUgGGCgUC- -5'
12559 3' -58.8 NC_003345.1 + 32448 0.71 0.362153
Target:  5'- gCCuuGGGGAACGcuUCCCCGACgCCGa-- -3'
miRNA:   3'- -GGugCUCCUUGC--AGGGGCUG-GGCguc -5'
12559 3' -58.8 NC_003345.1 + 1442 0.72 0.346317
Target:  5'- aCCACGGGGGcCGUCUCC--CCCGCu- -3'
miRNA:   3'- -GGUGCUCCUuGCAGGGGcuGGGCGuc -5'
12559 3' -58.8 NC_003345.1 + 67261 0.72 0.343985
Target:  5'- -aGCGAcggugggaguggugGGAACGaCCCCGACCCGUc- -3'
miRNA:   3'- ggUGCU--------------CCUUGCaGGGGCUGGGCGuc -5'
12559 3' -58.8 NC_003345.1 + 49166 0.72 0.316156
Target:  5'- aCUACGAGGAcgauuggagaGCGUCCCCcuCCgCGCAu -3'
miRNA:   3'- -GGUGCUCCU----------UGCAGGGGcuGG-GCGUc -5'
12559 3' -58.8 NC_003345.1 + 21748 0.75 0.22084
Target:  5'- aCgACGAGGGGC-UUCCCGAggguguCCCGCAGg -3'
miRNA:   3'- -GgUGCUCCUUGcAGGGGCU------GGGCGUC- -5'
12559 3' -58.8 NC_003345.1 + 42751 1 0.004269
Target:  5'- uCCACGAGGAA-GUCCCCGACCCGCAGg -3'
miRNA:   3'- -GGUGCUCCUUgCAGGGGCUGGGCGUC- -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.