miRNA display CGI


Results 1 - 20 of 63 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
19306 3' -62 NC_004685.1 + 68948 0.65 0.409824
Target:  5'- cGGCUGCgucggcaccucgGCUCGCAcggcGUCGGGaUCAc- -3'
miRNA:   3'- aCCGACGa-----------CGAGCGU----CGGCCC-GGUug -5'
19306 3' -62 NC_004685.1 + 9784 0.66 0.402702
Target:  5'- cGGCUGggGUUCGCcuaCCGcGGCCGccGCg -3'
miRNA:   3'- aCCGACgaCGAGCGuc-GGC-CCGGU--UG- -5'
19306 3' -62 NC_004685.1 + 52572 0.66 0.402702
Target:  5'- uUGGUggaGCUGUacaggUCGCAGUCGauguggaccaGGCCGAUg -3'
miRNA:   3'- -ACCGa--CGACG-----AGCGUCGGC----------CCGGUUG- -5'
19306 3' -62 NC_004685.1 + 58096 0.66 0.402702
Target:  5'- cGGcCUGCgcgGCUCGCcgcgaccuGCCGuggacaGCCGACa -3'
miRNA:   3'- aCC-GACGa--CGAGCGu-------CGGCc-----CGGUUG- -5'
19306 3' -62 NC_004685.1 + 38842 0.66 0.402702
Target:  5'- cGGCUGCcGCgC-CGGUCGGuGCCcGCg -3'
miRNA:   3'- aCCGACGaCGaGcGUCGGCC-CGGuUG- -5'
19306 3' -62 NC_004685.1 + 41587 0.66 0.386107
Target:  5'- -aGCUGCUGCgcggcgaacgccugcUGCAGCuCGGcGUCGGCg -3'
miRNA:   3'- acCGACGACGa--------------GCGUCG-GCC-CGGUUG- -5'
19306 3' -62 NC_004685.1 + 22641 0.66 0.385246
Target:  5'- cGGUggGCUGCgUCGCcGCUucGGCCAAUa -3'
miRNA:   3'- aCCGa-CGACG-AGCGuCGGc-CCGGUUG- -5'
19306 3' -62 NC_004685.1 + 2233 0.66 0.376707
Target:  5'- cGGgUGCcagaccugccUGC-CGCccGGCCGGGCUGAUg -3'
miRNA:   3'- aCCgACG----------ACGaGCG--UCGGCCCGGUUG- -5'
19306 3' -62 NC_004685.1 + 12477 0.66 0.376707
Target:  5'- gGGCcGaccgUGgaCGCGGCCGGugccGCCAACg -3'
miRNA:   3'- aCCGaCg---ACgaGCGUCGGCC----CGGUUG- -5'
19306 3' -62 NC_004685.1 + 66081 0.66 0.368297
Target:  5'- uUGGUgccGCcGUagUCGCGguGCCGGGCCAucACa -3'
miRNA:   3'- -ACCGa--CGaCG--AGCGU--CGGCCCGGU--UG- -5'
19306 3' -62 NC_004685.1 + 35298 0.66 0.368297
Target:  5'- gUGGCUGCcggGCgacgaGCAGCCGGaCUAc- -3'
miRNA:   3'- -ACCGACGa--CGag---CGUCGGCCcGGUug -5'
19306 3' -62 NC_004685.1 + 43039 0.66 0.365799
Target:  5'- cGGCUGUggugUGCUCGuCGgugcggcggugcucGCCGcGGUCGGCu -3'
miRNA:   3'- aCCGACG----ACGAGC-GU--------------CGGC-CCGGUUG- -5'
19306 3' -62 NC_004685.1 + 3506 0.66 0.360017
Target:  5'- -aGCUGCUGUUCuGCGGCCaucacGCCAAg -3'
miRNA:   3'- acCGACGACGAG-CGUCGGcc---CGGUUg -5'
19306 3' -62 NC_004685.1 + 29972 0.66 0.360017
Target:  5'- cGcGCUGaaGCUgGCcGCCGcGGUCGACg -3'
miRNA:   3'- aC-CGACgaCGAgCGuCGGC-CCGGUUG- -5'
19306 3' -62 NC_004685.1 + 34950 0.67 0.351867
Target:  5'- gUGGCUGCcGCUggccgCGCAGCCGuucucccacGCCAu- -3'
miRNA:   3'- -ACCGACGaCGA-----GCGUCGGCc--------CGGUug -5'
19306 3' -62 NC_004685.1 + 63088 0.67 0.34385
Target:  5'- cGGCgguucgGgaacguccgaaCUGCUCGCccAGCCGGuGCCGAg -3'
miRNA:   3'- aCCGa-----C-----------GACGAGCG--UCGGCC-CGGUUg -5'
19306 3' -62 NC_004685.1 + 55586 0.67 0.34385
Target:  5'- cGGUgaucUGCUGCaC-CAGCCGGGUCGc- -3'
miRNA:   3'- aCCG----ACGACGaGcGUCGGCCCGGUug -5'
19306 3' -62 NC_004685.1 + 2854 0.67 0.34385
Target:  5'- gGGUccacUGCUuggGCUUGCGGCCGGuGCgCAcgGCg -3'
miRNA:   3'- aCCG----ACGA---CGAGCGUCGGCC-CG-GU--UG- -5'
19306 3' -62 NC_004685.1 + 45526 0.67 0.343055
Target:  5'- cGGCgUGCUGagCGCGGUgaucacgCGGGCCAcuACg -3'
miRNA:   3'- aCCG-ACGACgaGCGUCG-------GCCCGGU--UG- -5'
19306 3' -62 NC_004685.1 + 44815 0.67 0.34147
Target:  5'- cGGCcguguagaggaacuUGCcccGCUUGC-GCCGGGCgAACa -3'
miRNA:   3'- aCCG--------------ACGa--CGAGCGuCGGCCCGgUUG- -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.