miRNA display CGI


Results 1 - 16 of 16 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
28401 3' -60.4 NC_005946.1 + 88578 0.66 0.680683
Target:  5'- -gGCCUGGGGGcAGuuguGGCCUACa---- -3'
miRNA:   3'- cgCGGGCCCCC-UUu---CCGGAUGcaggg -5'
28401 3' -60.4 NC_005946.1 + 75096 0.66 0.680683
Target:  5'- -gGCCCGGGGGcaucuuaacGGCC-AgGUCUg -3'
miRNA:   3'- cgCGGGCCCCCuuu------CCGGaUgCAGGg -5'
28401 3' -60.4 NC_005946.1 + 82537 0.66 0.680683
Target:  5'- uCGUCC-GGGGAGAGGCUggagGUGUCUg -3'
miRNA:   3'- cGCGGGcCCCCUUUCCGGa---UGCAGGg -5'
28401 3' -60.4 NC_005946.1 + 78987 0.66 0.660669
Target:  5'- gGCGUacgccagggCCGGGGGccacAGGGCUUgGCGUaCCUg -3'
miRNA:   3'- -CGCG---------GGCCCCCu---UUCCGGA-UGCA-GGG- -5'
28401 3' -60.4 NC_005946.1 + 34336 0.66 0.650624
Target:  5'- -aGaCCUGcGGGuAAGGCCUugugcCGUCCCu -3'
miRNA:   3'- cgC-GGGCcCCCuUUCCGGAu----GCAGGG- -5'
28401 3' -60.4 NC_005946.1 + 61201 0.66 0.648614
Target:  5'- aGUGCCUGGGcaGGcuGAGGGCCaacggggggacCGUCCUg -3'
miRNA:   3'- -CGCGGGCCC--CC--UUUCCGGau---------GCAGGG- -5'
28401 3' -60.4 NC_005946.1 + 28882 0.67 0.610382
Target:  5'- cCGuCCCGuGGGGAGAGuuuGCagACGUCCa -3'
miRNA:   3'- cGC-GGGC-CCCCUUUC---CGgaUGCAGGg -5'
28401 3' -60.4 NC_005946.1 + 3760 0.67 0.610382
Target:  5'- -aGUCCGaGGGGGAcaGGGCC-ACGaCCa -3'
miRNA:   3'- cgCGGGC-CCCCUU--UCCGGaUGCaGGg -5'
28401 3' -60.4 NC_005946.1 + 49179 0.67 0.600342
Target:  5'- aGCaGCCaGGGGGGGcauAGGCCaa-GUCaCCa -3'
miRNA:   3'- -CG-CGGgCCCCCUU---UCCGGaugCAG-GG- -5'
28401 3' -60.4 NC_005946.1 + 64786 0.68 0.560477
Target:  5'- cGCGCCCGacuGGAccGGCCgauccaGUCCUa -3'
miRNA:   3'- -CGCGGGCcc-CCUuuCCGGaug---CAGGG- -5'
28401 3' -60.4 NC_005946.1 + 77056 0.68 0.560477
Target:  5'- aCGagaCGGGGGGucucacGGGCuCUugGUCCUa -3'
miRNA:   3'- cGCgg-GCCCCCUu-----UCCG-GAugCAGGG- -5'
28401 3' -60.4 NC_005946.1 + 102011 0.68 0.550616
Target:  5'- -aGCUCGGGGGccugcucGCCUcCGUCCUu -3'
miRNA:   3'- cgCGGGCCCCCuuuc---CGGAuGCAGGG- -5'
28401 3' -60.4 NC_005946.1 + 36251 0.68 0.507938
Target:  5'- cGgGUCUGGGGGGAGcGGCCUugaggACGgaagagacacaagCCCu -3'
miRNA:   3'- -CgCGGGCCCCCUUU-CCGGA-----UGCa------------GGG- -5'
28401 3' -60.4 NC_005946.1 + 7958 0.69 0.4704
Target:  5'- aCGCagaguaCGGGGcgaaaaaGAAGGGCCUGgguucguuuccaacCGUCCCg -3'
miRNA:   3'- cGCGg-----GCCCC-------CUUUCCGGAU--------------GCAGGG- -5'
28401 3' -60.4 NC_005946.1 + 79521 0.72 0.338774
Target:  5'- aGCgGCCCGGGGcguuguagugccuGGAGGGCCUgACGgCCg -3'
miRNA:   3'- -CG-CGGGCCCC-------------CUUUCCGGA-UGCaGGg -5'
28401 3' -60.4 NC_005946.1 + 62201 1.12 0.000523
Target:  5'- cGCGCCCGGGGGAAAGGCCUACGUCCCc -3'
miRNA:   3'- -CGCGGGCCCCCUUUCCGGAUGCAGGG- -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.