miRNA display CGI


Results 1 - 20 of 46 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
23027 3' -59.6 NC_005178.1 + 2717 0.66 0.389327
Target:  5'- gCCgCGCUGCUgaacgccgcccuGGGC---GAGGUGGCc -3'
miRNA:   3'- gGGgGUGACGG------------UCCGuuaCUCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 3684 0.67 0.325677
Target:  5'- aCCCCCGCcugacuguuguagGgCAGGCuguucuucauaucGAUGcccAGGCGGCc -3'
miRNA:   3'- -GGGGGUGa------------CgGUCCG-------------UUAC---UCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 3752 0.68 0.284123
Target:  5'- gCgCCgAUguaGCCGGGCAGUuccuuGGCGGCg -3'
miRNA:   3'- -GgGGgUGa--CGGUCCGUUAcu---CCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 3986 0.68 0.267347
Target:  5'- cCCUCCGCUucgugcagcGcCCAGGCuucguugggggucAUGuGGCGGCg -3'
miRNA:   3'- -GGGGGUGA---------C-GGUCCGu------------UACuCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 4543 0.66 0.380383
Target:  5'- --aCCACUGCCGGuaGCGcUG-GGCGGg -3'
miRNA:   3'- gggGGUGACGGUC--CGUuACuCCGCCg -5'
23027 3' -59.6 NC_005178.1 + 6829 0.75 0.090728
Target:  5'- gCCUCAUUGCCuGGCAGUGGGG-GuGCu -3'
miRNA:   3'- gGGGGUGACGGuCCGUUACUCCgC-CG- -5'
23027 3' -59.6 NC_005178.1 + 6888 1.14 0.000098
Target:  5'- aCCCCCACUGCCAGGCAAUGAGGCGGCg -3'
miRNA:   3'- -GGGGGUGACGGUCCGUUACUCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 7366 0.75 0.090728
Target:  5'- aCCCCCAUgcGCUGGaGCAGccGGGCGGCg -3'
miRNA:   3'- -GGGGGUGa-CGGUC-CGUUacUCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 7398 0.76 0.07863
Target:  5'- gCCCCUcugucgGCU-CCAGGCGAUGAaGGCGGa -3'
miRNA:   3'- -GGGGG------UGAcGGUCCGUUACU-CCGCCg -5'
23027 3' -59.6 NC_005178.1 + 8750 0.66 0.398408
Target:  5'- gCCCU--UGCCguGGGCGacuuggccagcGUGcGGGCGGCg -3'
miRNA:   3'- gGGGGugACGG--UCCGU-----------UAC-UCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 8884 0.66 0.368963
Target:  5'- aCCCgGCacgcGCCGGGCGAcuuucuugccgaccUGGuGCGGCu -3'
miRNA:   3'- gGGGgUGa---CGGUCCGUU--------------ACUcCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 9495 0.66 0.389327
Target:  5'- gUCCCg--GCUAGGCc--GGGGCGGUu -3'
miRNA:   3'- gGGGGugaCGGUCCGuuaCUCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 9585 0.73 0.134634
Target:  5'- uUCCCGC-GCCAGGCGGcgcuGGCGGUc -3'
miRNA:   3'- gGGGGUGaCGGUCCGUUacu-CCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 10181 0.7 0.208169
Target:  5'- gCCgCCAUgGCCAGGUc-UGAGGUGGa -3'
miRNA:   3'- -GGgGGUGaCGGUCCGuuACUCCGCCg -5'
23027 3' -59.6 NC_005178.1 + 10309 0.69 0.224159
Target:  5'- gUCCUgGCggauagccgaggGCCGGGCGcgGAGG-GGCg -3'
miRNA:   3'- -GGGGgUGa-----------CGGUCCGUuaCUCCgCCG- -5'
23027 3' -59.6 NC_005178.1 + 10436 0.69 0.256614
Target:  5'- -gCUCGCUGCCacaAGGCGcUGGuacGGUGGCg -3'
miRNA:   3'- ggGGGUGACGG---UCCGUuACU---CCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 10718 0.66 0.398408
Target:  5'- -aCUCACcGCCAGGau----GGCGGCa -3'
miRNA:   3'- ggGGGUGaCGGUCCguuacuCCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 10858 0.68 0.29873
Target:  5'- aCgCUCGCgGCUGGGCucggccagGAUGGcGGCGGCg -3'
miRNA:   3'- -GgGGGUGaCGGUCCG--------UUACU-CCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 11818 0.68 0.26328
Target:  5'- aCCCCCAUgGCuCGGGCcAcgGccGUGGCa -3'
miRNA:   3'- -GGGGGUGaCG-GUCCG-UuaCucCGCCG- -5'
23027 3' -59.6 NC_005178.1 + 14896 0.68 0.283408
Target:  5'- -aUCCAUUgcGCCAGGCGguugacccagaacGUGAugcaGGCGGCg -3'
miRNA:   3'- ggGGGUGA--CGGUCCGU-------------UACU----CCGCCG- -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.