miRNA display CGI


Results 1 - 14 of 14 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
28556 3' -49.8 NC_005946.1 + 67775 0.66 0.991659
Target:  5'- gCCuGUCUUUgGGCAUGGCGUuuuccACCUc -3'
miRNA:   3'- gGGuCAGGAAaUUGUGCCGUA-----UGGAc -5'
28556 3' -49.8 NC_005946.1 + 25994 0.66 0.990923
Target:  5'- gCCCGGUCCUcuccucuacgcuaaaUUuACaaACGGCGUACa-- -3'
miRNA:   3'- -GGGUCAGGA---------------AAuUG--UGCCGUAUGgac -5'
28556 3' -49.8 NC_005946.1 + 60437 0.66 0.990405
Target:  5'- uCCCAGUCCc----CACGGCAggagACa-- -3'
miRNA:   3'- -GGGUCAGGaaauuGUGCCGUa---UGgac -5'
28556 3' -49.8 NC_005946.1 + 22557 0.66 0.989009
Target:  5'- aCCAGUCUgac--CACGGCG-ACCg- -3'
miRNA:   3'- gGGUCAGGaaauuGUGCCGUaUGGac -5'
28556 3' -49.8 NC_005946.1 + 20964 0.66 0.989009
Target:  5'- uCCCAGUCauacGugGUGGCGgACCUGg -3'
miRNA:   3'- -GGGUCAGgaaaUugUGCCGUaUGGAC- -5'
28556 3' -49.8 NC_005946.1 + 28996 0.66 0.987129
Target:  5'- aUCAGUCCUacucUUGcugcucggcuccCACGGCGUACcCUGg -3'
miRNA:   3'- gGGUCAGGA----AAUu-----------GUGCCGUAUG-GAC- -5'
28556 3' -49.8 NC_005946.1 + 30057 0.67 0.977057
Target:  5'- -gCGGUCCUa-AACAUGGCAgaUGCCa- -3'
miRNA:   3'- ggGUCAGGAaaUUGUGCCGU--AUGGac -5'
28556 3' -49.8 NC_005946.1 + 8888 0.67 0.977057
Target:  5'- aCCAGacaCCUUgu-CACGGuCAUGCCg- -3'
miRNA:   3'- gGGUCa--GGAAauuGUGCC-GUAUGGac -5'
28556 3' -49.8 NC_005946.1 + 62745 0.68 0.969631
Target:  5'- uCCCAGUcucggaaccgguggcCCUcUUGACgACGGCGUcguccuucuucaGCCUGa -3'
miRNA:   3'- -GGGUCA---------------GGA-AAUUG-UGCCGUA------------UGGAC- -5'
28556 3' -49.8 NC_005946.1 + 76366 0.68 0.964989
Target:  5'- aCCGGUCCc--AGCGgGGC--GCCUGg -3'
miRNA:   3'- gGGUCAGGaaaUUGUgCCGuaUGGAC- -5'
28556 3' -49.8 NC_005946.1 + 78974 0.68 0.961382
Target:  5'- gCCGGgggCCacagGGCuuGGCGUACCUGc -3'
miRNA:   3'- gGGUCa--GGaaa-UUGugCCGUAUGGAC- -5'
28556 3' -49.8 NC_005946.1 + 64267 0.71 0.875653
Target:  5'- gUCAGUCC----ACACGGCGUcagaggccGCCUGa -3'
miRNA:   3'- gGGUCAGGaaauUGUGCCGUA--------UGGAC- -5'
28556 3' -49.8 NC_005946.1 + 47820 0.72 0.867835
Target:  5'- gUCCAGUCCcgcagacCugGGCAUACaCUGu -3'
miRNA:   3'- -GGGUCAGGaaauu--GugCCGUAUG-GAC- -5'
28556 3' -49.8 NC_005946.1 + 84030 0.72 0.842098
Target:  5'- cUCCAGUCCUgaccgacGugGCGGCgggaaggagggugGUGCCUGc -3'
miRNA:   3'- -GGGUCAGGAaa-----UugUGCCG-------------UAUGGAC- -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.