miRNA display CGI


Results 1 - 20 of 61 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
28051 3' -60.9 NC_005887.1 + 38114 0.66 0.358027
Target:  5'- uGCGGCCgAGCG--UCGGcGCgaGCAGCa-- -3'
miRNA:   3'- -CGCCGG-UCGCugAGCC-CG--CGUCGaag -5'
28051 3' -60.9 NC_005887.1 + 36590 0.68 0.235189
Target:  5'- cGCGGCCAGCGcCUU---CGCGGCcUCg -3'
miRNA:   3'- -CGCCGGUCGCuGAGcccGCGUCGaAG- -5'
28051 3' -60.9 NC_005887.1 + 37336 0.69 0.217585
Target:  5'- uCGGUCuGCGcCUcggCGGGCGUgAGCUUCa -3'
miRNA:   3'- cGCCGGuCGCuGA---GCCCGCG-UCGAAG- -5'
28051 3' -60.9 NC_005887.1 + 15440 1.1 0.000151
Target:  5'- gGCGGCCAGCGACUCGGGCGCAGCUUCu -3'
miRNA:   3'- -CGCCGGUCGCUGAGCCCGCGUCGAAG- -5'
28051 3' -60.9 NC_005887.1 + 2163 0.66 0.333418
Target:  5'- cUGGCCGGCGGCgauucccuUCGugccgucGCGCAGCUc- -3'
miRNA:   3'- cGCCGGUCGCUG--------AGCc------CGCGUCGAag -5'
28051 3' -60.9 NC_005887.1 + 1584 0.66 0.325496
Target:  5'- cCGGCuCGGCGGCgcgCGGcGCGCcaacGGCg-- -3'
miRNA:   3'- cGCCG-GUCGCUGa--GCC-CGCG----UCGaag -5'
28051 3' -60.9 NC_005887.1 + 31119 0.67 0.310073
Target:  5'- cGCGGCCAuCGACcguauauuUCcGGCGCAcGcCUUCg -3'
miRNA:   3'- -CGCCGGUcGCUG--------AGcCCGCGU-C-GAAG- -5'
28051 3' -60.9 NC_005887.1 + 35943 0.67 0.310073
Target:  5'- uCGGCCAGCGcCUUGucgacuuccGCGUAcGCUUCg -3'
miRNA:   3'- cGCCGGUCGCuGAGCc--------CGCGU-CGAAG- -5'
28051 3' -60.9 NC_005887.1 + 28336 0.68 0.267168
Target:  5'- gGCGcGCCGGCGguuGCggaGGcGCGCGGCg-- -3'
miRNA:   3'- -CGC-CGGUCGC---UGag-CC-CGCGUCGaag -5'
28051 3' -60.9 NC_005887.1 + 41790 0.68 0.247578
Target:  5'- cUGGCCGGCGGucUUCGcgcuguauccGGCGCGGCg-- -3'
miRNA:   3'- cGCCGGUCGCU--GAGC----------CCGCGUCGaag -5'
28051 3' -60.9 NC_005887.1 + 36842 0.68 0.253973
Target:  5'- uGCGGCCGGUG-CUgCGGcCGguGCUg- -3'
miRNA:   3'- -CGCCGGUCGCuGA-GCCcGCguCGAag -5'
28051 3' -60.9 NC_005887.1 + 27974 0.67 0.287993
Target:  5'- cGCGcGCCgagcGGCGACUCGaacaggugcccGGCacGCuGCUUCa -3'
miRNA:   3'- -CGC-CGG----UCGCUGAGC-----------CCG--CGuCGAAG- -5'
28051 3' -60.9 NC_005887.1 + 37771 0.66 0.349684
Target:  5'- cGCGGCCuGCGcCUCGGcggcuugcuGCGCcuGCa-- -3'
miRNA:   3'- -CGCCGGuCGCuGAGCC---------CGCGu-CGaag -5'
28051 3' -60.9 NC_005887.1 + 26401 0.68 0.253973
Target:  5'- aGCGGCguGCGGCgCGuGGC-CGGCgcaUCg -3'
miRNA:   3'- -CGCCGguCGCUGaGC-CCGcGUCGa--AG- -5'
28051 3' -60.9 NC_005887.1 + 29367 0.66 0.349684
Target:  5'- -gGGUCGGUGcCgCGGGuCGCcGCUUCg -3'
miRNA:   3'- cgCCGGUCGCuGaGCCC-GCGuCGAAG- -5'
28051 3' -60.9 NC_005887.1 + 39154 0.67 0.287993
Target:  5'- cGCGGCCcuucucGCuGuC-CGGGCGCGGCa-- -3'
miRNA:   3'- -CGCCGGu-----CG-CuGaGCCCGCGUCGaag -5'
28051 3' -60.9 NC_005887.1 + 12653 0.68 0.253973
Target:  5'- aCGGCgAGUGGCUgCGcGUGCAGCUg- -3'
miRNA:   3'- cGCCGgUCGCUGA-GCcCGCGUCGAag -5'
28051 3' -60.9 NC_005887.1 + 27368 0.68 0.235189
Target:  5'- uGCGGCCugcGCGGCcugCGcGGCGUAgGCgUCg -3'
miRNA:   3'- -CGCCGGu--CGCUGa--GC-CCGCGU-CGaAG- -5'
28051 3' -60.9 NC_005887.1 + 29114 0.66 0.349684
Target:  5'- gGCGGUCAGCGucuucucugcCUCGucuGGCGuCAGCa-- -3'
miRNA:   3'- -CGCCGGUCGCu---------GAGC---CCGC-GUCGaag -5'
28051 3' -60.9 NC_005887.1 + 40548 0.66 0.324711
Target:  5'- -aGGUCGGCGGCacguccuUCGGGUaGCGGCc-- -3'
miRNA:   3'- cgCCGGUCGCUG-------AGCCCG-CGUCGaag -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.