miRNA display CGI


Results 1 - 20 of 49 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
28077 3' -60.2 NC_005887.1 + 21273 0.75 0.086656
Target:  5'- cGCGGCGGCGGcguauGCGCUGcUGGCgucGCc -3'
miRNA:   3'- aUGCCGCUGCCu----CGCGACaGCCGa--CG- -5'
28077 3' -60.2 NC_005887.1 + 3301 0.68 0.269892
Target:  5'- -cCGGCGACGcAGCuCUGgcaUCGGCUGa -3'
miRNA:   3'- auGCCGCUGCcUCGcGAC---AGCCGACg -5'
28077 3' -60.2 NC_005887.1 + 33527 0.68 0.276765
Target:  5'- -uCGGCGAucacCGuGAGCGCcugcuucugGUCGGgUGCg -3'
miRNA:   3'- auGCCGCU----GC-CUCGCGa--------CAGCCgACG- -5'
28077 3' -60.2 NC_005887.1 + 11779 0.68 0.283777
Target:  5'- -uCGGCGGCGuccuCGCUGcUCGGCgGCg -3'
miRNA:   3'- auGCCGCUGCcuc-GCGAC-AGCCGaCG- -5'
28077 3' -60.2 NC_005887.1 + 35199 0.67 0.328009
Target:  5'- aACGGCGGgGcGAuucguuGCGCagcagcuUGUCGGcCUGCg -3'
miRNA:   3'- aUGCCGCUgC-CU------CGCG-------ACAGCC-GACG- -5'
28077 3' -60.2 NC_005887.1 + 2194 0.66 0.378014
Target:  5'- cGCGGUGAuCGGgcAGCGCaaaccgaUGggCGGCUGg -3'
miRNA:   3'- aUGCCGCU-GCC--UCGCG-------ACa-GCCGACg -5'
28077 3' -60.2 NC_005887.1 + 1485 0.66 0.38772
Target:  5'- gACGGCGuGCGGcgcucGCGCggcgCGGCcgUGCg -3'
miRNA:   3'- aUGCCGC-UGCCu----CGCGaca-GCCG--ACG- -5'
28077 3' -60.2 NC_005887.1 + 40529 0.66 0.38772
Target:  5'- cGCGGCGcGCGGcAGCGaCgacgGUCuGGCgcucGCg -3'
miRNA:   3'- aUGCCGC-UGCC-UCGC-Ga---CAG-CCGa---CG- -5'
28077 3' -60.2 NC_005887.1 + 33810 0.66 0.396685
Target:  5'- cACGGCcaccACGcGGGUGUcagGUCGGCgcgGCg -3'
miRNA:   3'- aUGCCGc---UGC-CUCGCGa--CAGCCGa--CG- -5'
28077 3' -60.2 NC_005887.1 + 34105 0.69 0.256559
Target:  5'- aGCGGUGACGccGAGCGC--UCGGCa-- -3'
miRNA:   3'- aUGCCGCUGC--CUCGCGacAGCCGacg -5'
28077 3' -60.2 NC_005887.1 + 7212 0.69 0.237578
Target:  5'- cGCGuGCG-CaG-GCGCUGUCGGCgucggGCg -3'
miRNA:   3'- aUGC-CGCuGcCuCGCGACAGCCGa----CG- -5'
28077 3' -60.2 NC_005887.1 + 22083 0.69 0.233925
Target:  5'- cACGGCGGCcgucGGGGCccuucuguggaaacuGCUGcCGGgUGCg -3'
miRNA:   3'- aUGCCGCUG----CCUCG---------------CGACaGCCgACG- -5'
28077 3' -60.2 NC_005887.1 + 17172 0.75 0.094319
Target:  5'- --aGGCGugGGAGCGCgcgaacgCGGCcGCa -3'
miRNA:   3'- augCCGCugCCUCGCGaca----GCCGaCG- -5'
28077 3' -60.2 NC_005887.1 + 14219 0.74 0.108531
Target:  5'- cAgGGCGGCGccGCGCUGuUCGGCgcgGCa -3'
miRNA:   3'- aUgCCGCUGCcuCGCGAC-AGCCGa--CG- -5'
28077 3' -60.2 NC_005887.1 + 10099 0.73 0.124389
Target:  5'- gGCGGCccgcgccGACGGccaGCUGaUCGGCUGCa -3'
miRNA:   3'- aUGCCG-------CUGCCucgCGAC-AGCCGACG- -5'
28077 3' -60.2 NC_005887.1 + 13086 0.72 0.142763
Target:  5'- cGCGGCGcucgaucGCGGAGUGCUGcagGGCgUGCc -3'
miRNA:   3'- aUGCCGC-------UGCCUCGCGACag-CCG-ACG- -5'
28077 3' -60.2 NC_005887.1 + 11376 0.72 0.159649
Target:  5'- cGCgGGCGucagcgcagcCGGAGCGCUGgCGGCcgGCg -3'
miRNA:   3'- aUG-CCGCu---------GCCUCGCGACaGCCGa-CG- -5'
28077 3' -60.2 NC_005887.1 + 23245 0.71 0.168069
Target:  5'- aGCGGCGGCGGucggcgcgcaaaaGGCGCagcucgUGgCGGUUGCc -3'
miRNA:   3'- aUGCCGCUGCC-------------UCGCG------ACaGCCGACG- -5'
28077 3' -60.2 NC_005887.1 + 30702 0.7 0.203144
Target:  5'- -uCGGCGAgcaGGuGCGCgagcagcuUGUCGcGCUGCg -3'
miRNA:   3'- auGCCGCUg--CCuCGCG--------ACAGC-CGACG- -5'
28077 3' -60.2 NC_005887.1 + 13372 0.7 0.219786
Target:  5'- -cCGGCGAUGGcgcucGCGCUGaaGGCcgGCg -3'
miRNA:   3'- auGCCGCUGCCu----CGCGACagCCGa-CG- -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.