miRNA display CGI


Results 1 - 18 of 18 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
1368 3' -62 NC_001335.1 + 4054 0.66 0.365485
Target:  5'- cGCUgCCGCUGgcaguugguucacaUGCCgaCCGGCgaggcagCCGGCg -3'
miRNA:   3'- -CGAgGGCGAC--------------GCGGa-GGUCGa------GGCUG- -5'
1368 3' -62 NC_001335.1 + 4952 0.66 0.359677
Target:  5'- --cCCCGC--CGCCUCCGuGCUggagcCCGACg -3'
miRNA:   3'- cgaGGGCGacGCGGAGGU-CGA-----GGCUG- -5'
1368 3' -62 NC_001335.1 + 39185 0.66 0.359677
Target:  5'- gGCUUCCGCuUGUGCUuaCGGUUCUGcACc -3'
miRNA:   3'- -CGAGGGCG-ACGCGGagGUCGAGGC-UG- -5'
1368 3' -62 NC_001335.1 + 26054 0.66 0.327738
Target:  5'- ---aUCGCUGCGaucCCUCC-GCUCUGGCu -3'
miRNA:   3'- cgagGGCGACGC---GGAGGuCGAGGCUG- -5'
1368 3' -62 NC_001335.1 + 33965 0.67 0.320089
Target:  5'- gGCUCuCCGUUGCGUa--CGGCUCCc-- -3'
miRNA:   3'- -CGAG-GGCGACGCGgagGUCGAGGcug -5'
1368 3' -62 NC_001335.1 + 3868 0.67 0.31183
Target:  5'- -aUCCCuuggGCUGCaGCCgauUCCGGCUacuacagCCGACa -3'
miRNA:   3'- cgAGGG----CGACG-CGG---AGGUCGA-------GGCUG- -5'
1368 3' -62 NC_001335.1 + 10164 0.67 0.283858
Target:  5'- aCUCuCCGCcgagUGCGaCCUCUaaguuGGCUCUGGCc -3'
miRNA:   3'- cGAG-GGCG----ACGC-GGAGG-----UCGAGGCUG- -5'
1368 3' -62 NC_001335.1 + 3567 0.68 0.270301
Target:  5'- uGCa--CGaCaGCGUUUCCGGCUCCGACg -3'
miRNA:   3'- -CGaggGC-GaCGCGGAGGUCGAGGCUG- -5'
1368 3' -62 NC_001335.1 + 17074 0.68 0.263719
Target:  5'- uGCUgCCGUcgcucaUGCagaGCUUCCAGCagaucUCCGACg -3'
miRNA:   3'- -CGAgGGCG------ACG---CGGAGGUCG-----AGGCUG- -5'
1368 3' -62 NC_001335.1 + 1267 0.68 0.263719
Target:  5'- cGCcUCCGCUGCucCCUgCAGCUCCa-- -3'
miRNA:   3'- -CGaGGGCGACGc-GGAgGUCGAGGcug -5'
1368 3' -62 NC_001335.1 + 22121 0.68 0.250948
Target:  5'- aGC-CCUGCaGCGCCUCCAGa---GGCa -3'
miRNA:   3'- -CGaGGGCGaCGCGGAGGUCgaggCUG- -5'
1368 3' -62 NC_001335.1 + 1203 0.68 0.243533
Target:  5'- gGCUCCagcgccucugcgGUUGCGUgCUCCGGUUCCGGg -3'
miRNA:   3'- -CGAGGg-----------CGACGCG-GAGGUCGAGGCUg -5'
1368 3' -62 NC_001335.1 + 19454 0.7 0.199693
Target:  5'- cGUUCCUGCUcGCGCUUgCAGCgCCG-Ca -3'
miRNA:   3'- -CGAGGGCGA-CGCGGAgGUCGaGGCuG- -5'
1368 3' -62 NC_001335.1 + 16975 0.7 0.175339
Target:  5'- uGCUCaCCGgaGC-CCUCCaAGCUCUGGg -3'
miRNA:   3'- -CGAG-GGCgaCGcGGAGG-UCGAGGCUg -5'
1368 3' -62 NC_001335.1 + 25297 0.71 0.16636
Target:  5'- cCUCCCGCUGCGCugaguCUUCAGCgauccccaUCCG-Cg -3'
miRNA:   3'- cGAGGGCGACGCG-----GAGGUCG--------AGGCuG- -5'
1368 3' -62 NC_001335.1 + 1319 0.72 0.134448
Target:  5'- aCUUCCGCcgccaccggUGaCGCCUCCGGUaCCGGCg -3'
miRNA:   3'- cGAGGGCG---------AC-GCGGAGGUCGaGGCUG- -5'
1368 3' -62 NC_001335.1 + 9021 0.72 0.131233
Target:  5'- cGUUCCCGUUGUGCCgcuuccgaaccggacCCGGCUCUcgGACc -3'
miRNA:   3'- -CGAGGGCGACGCGGa--------------GGUCGAGG--CUG- -5'
1368 3' -62 NC_001335.1 + 23926 1.11 0.000136
Target:  5'- aGCUCCCGCUGCGCCUCCAGCUCCGACg -3'
miRNA:   3'- -CGAGGGCGACGCGGAGGUCGAGGCUG- -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.