miRNA display CGI


Results 1 - 20 of 30 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
24087 3' -58.8 NC_005262.1 + 59964 0.66 0.581381
Target:  5'- -cGUCACGCgCGGGGC-GcUCGGCa-- -3'
miRNA:   3'- acCAGUGCG-GCCUCGgCaAGCCGaug -5'
24087 3' -58.8 NC_005262.1 + 15714 0.67 0.529207
Target:  5'- ---gCGCGUCGGcGCCGggCGGCUcgucGCg -3'
miRNA:   3'- accaGUGCGGCCuCGGCaaGCCGA----UG- -5'
24087 3' -58.8 NC_005262.1 + 12721 0.67 0.529207
Target:  5'- gGcGUCcCGCCGGAGCaccgcgucauCGgucagUGGCUGCg -3'
miRNA:   3'- aC-CAGuGCGGCCUCG----------GCaa---GCCGAUG- -5'
24087 3' -58.8 NC_005262.1 + 62748 0.67 0.518967
Target:  5'- cGGUCAgCGCCGcAGCa-UUCGGC-ACg -3'
miRNA:   3'- aCCAGU-GCGGCcUCGgcAAGCCGaUG- -5'
24087 3' -58.8 NC_005262.1 + 61704 0.67 0.518967
Target:  5'- aGGgCGCGCCGGGuUCGcUCGGCg-- -3'
miRNA:   3'- aCCaGUGCGGCCUcGGCaAGCCGaug -5'
24087 3' -58.8 NC_005262.1 + 22233 0.67 0.508807
Target:  5'- cGGcCGCGCCGcccacGCCGgcCGGcCUGCg -3'
miRNA:   3'- aCCaGUGCGGCcu---CGGCaaGCC-GAUG- -5'
24087 3' -58.8 NC_005262.1 + 48066 0.67 0.508807
Target:  5'- cGGUCGCaccuGCCGcgacGAGCCGccCGGCgccgACg -3'
miRNA:   3'- aCCAGUG----CGGC----CUCGGCaaGCCGa---UG- -5'
24087 3' -58.8 NC_005262.1 + 14601 0.67 0.507795
Target:  5'- cGGccagCAUGCCGGAgaucaucGCCGUgcgCGccGCUGCg -3'
miRNA:   3'- aCCa---GUGCGGCCU-------CGGCAa--GC--CGAUG- -5'
24087 3' -58.8 NC_005262.1 + 23909 0.67 0.498731
Target:  5'- aGGaUCgACGCC-GAGgCGUUCGGCaagGCg -3'
miRNA:   3'- aCC-AG-UGCGGcCUCgGCAAGCCGa--UG- -5'
24087 3' -58.8 NC_005262.1 + 50814 0.67 0.498731
Target:  5'- aUGGagcgcuUCGCGCCGGAGacgggcaCGcUCGGCa-- -3'
miRNA:   3'- -ACC------AGUGCGGCCUCg------GCaAGCCGaug -5'
24087 3' -58.8 NC_005262.1 + 15796 0.67 0.478854
Target:  5'- uUGGUCGCggggguGCCGGGGaaGcUCGGCa-- -3'
miRNA:   3'- -ACCAGUG------CGGCCUCggCaAGCCGaug -5'
24087 3' -58.8 NC_005262.1 + 17704 0.67 0.478854
Target:  5'- gUGGUCGCuggcccgaacgaGCCcGAGCCGgaaguagUCGGC-ACg -3'
miRNA:   3'- -ACCAGUG------------CGGcCUCGGCa------AGCCGaUG- -5'
24087 3' -58.8 NC_005262.1 + 22417 0.68 0.469062
Target:  5'- cGGUCGCGuaGGucagccguGCCGUUCGugccguccgcgaGCUGCc -3'
miRNA:   3'- aCCAGUGCggCCu-------CGGCAAGC------------CGAUG- -5'
24087 3' -58.8 NC_005262.1 + 60492 0.68 0.469062
Target:  5'- aGGgcgagACGCCGG-GCCGcgCGGCgcagGCc -3'
miRNA:   3'- aCCag---UGCGGCCuCGGCaaGCCGa---UG- -5'
24087 3' -58.8 NC_005262.1 + 51198 0.68 0.449793
Target:  5'- cGGcC-CGCUGGAGCCGcgCGGgcgaUGCu -3'
miRNA:   3'- aCCaGuGCGGCCUCGGCaaGCCg---AUG- -5'
24087 3' -58.8 NC_005262.1 + 21004 0.68 0.430967
Target:  5'- cGGgcgaCGCGCCGGAGacgaUGUagGGCUGg -3'
miRNA:   3'- aCCa---GUGCGGCCUCg---GCAagCCGAUg -5'
24087 3' -58.8 NC_005262.1 + 51565 0.68 0.421729
Target:  5'- gUGGUCGCGCgCGGAGCUugagCGcGCcGCc -3'
miRNA:   3'- -ACCAGUGCG-GCCUCGGcaa-GC-CGaUG- -5'
24087 3' -58.8 NC_005262.1 + 5305 0.68 0.421729
Target:  5'- cGGUCGaggcgGUCGGAGCUGgcCGGCa-- -3'
miRNA:   3'- aCCAGUg----CGGCCUCGGCaaGCCGaug -5'
24087 3' -58.8 NC_005262.1 + 17546 0.69 0.403617
Target:  5'- cGGUCGCGCgcgaggCGGcAGCCGcggCGGCg-- -3'
miRNA:   3'- aCCAGUGCG------GCC-UCGGCaa-GCCGaug -5'
24087 3' -58.8 NC_005262.1 + 39254 0.69 0.394747
Target:  5'- aGGaUCACGCCGGcgaucgcgaaGGUCGUcaaGGCUAUu -3'
miRNA:   3'- aCC-AGUGCGGCC----------UCGGCAag-CCGAUG- -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.