miRNA display CGI


Results 1 - 20 of 21 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
23372 3' -60.8 NC_005259.1 + 67139 0.66 0.512939
Target:  5'- uGaGCACcgcuGUGAGCCGCuuGUCGa- -3'
miRNA:   3'- gC-CGUGuuc-CACUCGGCGggCAGCca -5'
23372 3' -60.8 NC_005259.1 + 55810 0.66 0.512939
Target:  5'- aCGGCucacccuCGGGGUaGGCCGCCgCGUCc-- -3'
miRNA:   3'- -GCCGu------GUUCCAcUCGGCGG-GCAGcca -5'
23372 3' -60.8 NC_005259.1 + 41311 0.66 0.512939
Target:  5'- uGaGCGCGAGGUcgaccucgaaaaGGGCgGUgCCGUCGGa -3'
miRNA:   3'- gC-CGUGUUCCA------------CUCGgCG-GGCAGCCa -5'
23372 3' -60.8 NC_005259.1 + 58961 0.66 0.50304
Target:  5'- uGGC-CAgcAGGUcGGGCaGCUCGUCGGc -3'
miRNA:   3'- gCCGuGU--UCCA-CUCGgCGGGCAGCCa -5'
23372 3' -60.8 NC_005259.1 + 3123 0.66 0.493225
Target:  5'- gCGGCACc--GUGGGCagcggacggcacCGCCCGUgGGa -3'
miRNA:   3'- -GCCGUGuucCACUCG------------GCGGGCAgCCa -5'
23372 3' -60.8 NC_005259.1 + 29999 0.66 0.493225
Target:  5'- aCGGUggucaccacgACAAGGUGAccaCCGCCgGggCGGUg -3'
miRNA:   3'- -GCCG----------UGUUCCACUc--GGCGGgCa-GCCA- -5'
23372 3' -60.8 NC_005259.1 + 60535 0.66 0.483498
Target:  5'- gGGC-CGGGacgcAGCCGCUCGUCGGc -3'
miRNA:   3'- gCCGuGUUCcac-UCGGCGGGCAGCCa -5'
23372 3' -60.8 NC_005259.1 + 13419 0.66 0.464329
Target:  5'- uGGC-CGGGGUcgccgccgGGGCCGCgcuaggcgugaCCGUCGGc -3'
miRNA:   3'- gCCGuGUUCCA--------CUCGGCG-----------GGCAGCCa -5'
23372 3' -60.8 NC_005259.1 + 20524 0.67 0.445563
Target:  5'- cCGaGCAC-GGGUGcGCUGCCCGcagcgUGGUg -3'
miRNA:   3'- -GC-CGUGuUCCACuCGGCGGGCa----GCCA- -5'
23372 3' -60.8 NC_005259.1 + 60970 0.67 0.417338
Target:  5'- gCGGCAgauCGAaccauuccucuucGGUGAGCucgCGCCCGUCGa- -3'
miRNA:   3'- -GCCGU---GUU-------------CCACUCG---GCGGGCAGCca -5'
23372 3' -60.8 NC_005259.1 + 6204 0.68 0.383425
Target:  5'- aGcGUgaGCGGGGUGAGCCGCCgCGcCGa- -3'
miRNA:   3'- gC-CG--UGUUCCACUCGGCGG-GCaGCca -5'
23372 3' -60.8 NC_005259.1 + 18700 0.69 0.338035
Target:  5'- uGaGCACGGcGGUcugaccucgaucaucGGGCCGCCCGgcaUCGGUa -3'
miRNA:   3'- gC-CGUGUU-CCA---------------CUCGGCGGGC---AGCCA- -5'
23372 3' -60.8 NC_005259.1 + 8648 0.69 0.312443
Target:  5'- gGGCACGAGGcuguggucGGGCUGCCaCG-CGGg -3'
miRNA:   3'- gCCGUGUUCCa-------CUCGGCGG-GCaGCCa -5'
23372 3' -60.8 NC_005259.1 + 27614 0.7 0.300918
Target:  5'- aCGuGCGCGGucuuGGUGAGCUGCaaguccucguucuugCCGUCGGa -3'
miRNA:   3'- -GC-CGUGUU----CCACUCGGCG---------------GGCAGCCa -5'
23372 3' -60.8 NC_005259.1 + 4558 0.71 0.258106
Target:  5'- gGGCACGAGGUcacGCCGaUCGUCGGc -3'
miRNA:   3'- gCCGUGUUCCAcu-CGGCgGGCAGCCa -5'
23372 3' -60.8 NC_005259.1 + 61506 0.71 0.245788
Target:  5'- aGGCGCucGGUGuGCCGgucgacCUCGUCGGg -3'
miRNA:   3'- gCCGUGuuCCACuCGGC------GGGCAGCCa -5'
23372 3' -60.8 NC_005259.1 + 52648 0.71 0.239814
Target:  5'- uGGgGCGAGGUGAGCgacgagcauUGCCCGUucaugcCGGUc -3'
miRNA:   3'- gCCgUGUUCCACUCG---------GCGGGCA------GCCA- -5'
23372 3' -60.8 NC_005259.1 + 62869 0.74 0.16403
Target:  5'- uCGGCGCGAGGUaGGCCGCUCGgUCa-- -3'
miRNA:   3'- -GCCGUGUUCCAcUCGGCGGGC-AGcca -5'
23372 3' -60.8 NC_005259.1 + 4426 0.74 0.147808
Target:  5'- cCGcGCGCccGAGGUcGAGCCGCCCGUgCGaGUg -3'
miRNA:   3'- -GC-CGUG--UUCCA-CUCGGCGGGCA-GC-CA- -5'
23372 3' -60.8 NC_005259.1 + 32900 0.74 0.147808
Target:  5'- gGGCG-AGGGUGAGCCacccgGCCCGcUCGGg -3'
miRNA:   3'- gCCGUgUUCCACUCGG-----CGGGC-AGCCa -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.