miRNA display CGI


Results 1 - 20 of 20 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
23361 3' -58.3 NC_005259.1 + 4483 0.67 0.524333
Target:  5'- cGGCgGUggaccauggugaucGCCAcCGCGCcgGGAguggCGCUGCGc -3'
miRNA:   3'- -CCGaCA--------------CGGU-GCGCG--UCUa---GCGACGC- -5'
23361 3' -58.3 NC_005259.1 + 7429 0.66 0.621954
Target:  5'- cGGCgGUGCC-CGCGCcGcAUgGCaGCGc -3'
miRNA:   3'- -CCGaCACGGuGCGCGuC-UAgCGaCGC- -5'
23361 3' -58.3 NC_005259.1 + 8132 0.68 0.496989
Target:  5'- cGGCUacggGUGCCcCGCGCcc-UCGUUGCu -3'
miRNA:   3'- -CCGA----CACGGuGCGCGucuAGCGACGc -5'
23361 3' -58.3 NC_005259.1 + 8655 0.67 0.568976
Target:  5'- aGGCUGUggucgggcuGCCACGCGggcaaCGGGgccgccucgaugUCGCUGuCGa -3'
miRNA:   3'- -CCGACA---------CGGUGCGC-----GUCU------------AGCGAC-GC- -5'
23361 3' -58.3 NC_005259.1 + 16491 0.67 0.527408
Target:  5'- gGGCgcacCCGCGCGCAuggccgagagcGAggCGCUGCGa -3'
miRNA:   3'- -CCGacacGGUGCGCGU-----------CUa-GCGACGC- -5'
23361 3' -58.3 NC_005259.1 + 19841 0.72 0.283299
Target:  5'- cGGCUGcUGCCGCGCuCGGuguggCGCUcGCGc -3'
miRNA:   3'- -CCGAC-ACGGUGCGcGUCua---GCGA-CGC- -5'
23361 3' -58.3 NC_005259.1 + 21625 0.76 0.16149
Target:  5'- aGGCUGUGUCGCGCGgAGuguUCGCcgagGCu -3'
miRNA:   3'- -CCGACACGGUGCGCgUCu--AGCGa---CGc -5'
23361 3' -58.3 NC_005259.1 + 26416 0.67 0.558495
Target:  5'- cGGCgGUGCCGC-CGUAGAaCGCaccgccgaGCGg -3'
miRNA:   3'- -CCGaCACGGUGcGCGUCUaGCGa-------CGC- -5'
23361 3' -58.3 NC_005259.1 + 27112 0.69 0.419257
Target:  5'- gGGCUGUGUCAUGCGgAucuccuacgguuuGAgggCGgCUGCGg -3'
miRNA:   3'- -CCGACACGGUGCGCgU-------------CUa--GC-GACGC- -5'
23361 3' -58.3 NC_005259.1 + 28295 0.73 0.263152
Target:  5'- aGGCcacgGUGCCGCccugcgcaGCGUAGAUCGgUGUGc -3'
miRNA:   3'- -CCGa---CACGGUG--------CGCGUCUAGCgACGC- -5'
23361 3' -58.3 NC_005259.1 + 36836 0.69 0.402109
Target:  5'- cGGUUGUG-CACGUGCuGAcgccgccCGCUGCGc -3'
miRNA:   3'- -CCGACACgGUGCGCGuCUa------GCGACGC- -5'
23361 3' -58.3 NC_005259.1 + 45508 0.67 0.517186
Target:  5'- cGCUGUGgCCAcCGCGCcGGuguuggccgccGUgGCUGCGa -3'
miRNA:   3'- cCGACAC-GGU-GCGCG-UC-----------UAgCGACGC- -5'
23361 3' -58.3 NC_005259.1 + 45931 0.69 0.448162
Target:  5'- aGGCUcUGCC-CGUGCAGAUcccucagcaCGUUGCc -3'
miRNA:   3'- -CCGAcACGGuGCGCGUCUA---------GCGACGc -5'
23361 3' -58.3 NC_005259.1 + 49350 0.66 0.601741
Target:  5'- aGGCgagagGUGCCGCGCGaugaagaggccggugAGAUCGUUcuugacgccgaGCGa -3'
miRNA:   3'- -CCGa----CACGGUGCGCg--------------UCUAGCGA-----------CGC- -5'
23361 3' -58.3 NC_005259.1 + 49974 0.66 0.60068
Target:  5'- -aCUGcGCauuGCGCGCacGGAUCGCgUGCGg -3'
miRNA:   3'- ccGACaCGg--UGCGCG--UCUAGCG-ACGC- -5'
23361 3' -58.3 NC_005259.1 + 50006 0.68 0.477154
Target:  5'- cGGCUGc-CCuCGUGCAcGggCGCUGCGu -3'
miRNA:   3'- -CCGACacGGuGCGCGU-CuaGCGACGC- -5'
23361 3' -58.3 NC_005259.1 + 60775 0.67 0.517186
Target:  5'- aGGUUGgGCUGCGCGaaCAGAUCaGCcGCGu -3'
miRNA:   3'- -CCGACaCGGUGCGC--GUCUAG-CGaCGC- -5'
23361 3' -58.3 NC_005259.1 + 66636 0.66 0.60068
Target:  5'- -cCUG-GCCAcCGCuCGGAUUGCUGCc -3'
miRNA:   3'- ccGACaCGGU-GCGcGUCUAGCGACGc -5'
23361 3' -58.3 NC_005259.1 + 67902 0.7 0.383683
Target:  5'- cGGCUGUggGUCucggcgaggucaaGCGCGUAGGUCGCgaggaugaucuUGCGg -3'
miRNA:   3'- -CCGACA--CGG-------------UGCGCGUCUAGCG-----------ACGC- -5'
23361 3' -58.3 NC_005259.1 + 67959 0.68 0.487024
Target:  5'- gGGUUGUGCUguagcGCGCGCAGcggCGUgGCc -3'
miRNA:   3'- -CCGACACGG-----UGCGCGUCua-GCGaCGc -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.