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
30554 5' -63 NC_006548.1 + 16818 0.66 0.268651
Target:  5'- cCAGUCCauaggGCucaucgucguugUCGGCGCCGGUCGa-- -3'
miRNA:   3'- cGUCAGGa----CG------------AGCCGCGGCCGGUcca -5'
30554 5' -63 NC_006548.1 + 14300 0.66 0.262003
Target:  5'- cGCGGaCCUGCa-GGCGCaguuccCGaGCCAGGc -3'
miRNA:   3'- -CGUCaGGACGagCCGCG------GC-CGGUCCa -5'
30554 5' -63 NC_006548.1 + 29152 0.66 0.262003
Target:  5'- uGCuAGaCCUGCaUCGGUcuaccGCCGaCCAGGUa -3'
miRNA:   3'- -CG-UCaGGACG-AGCCG-----CGGCcGGUCCA- -5'
30554 5' -63 NC_006548.1 + 29648 0.66 0.262003
Target:  5'- uGguGcCgCUGCcagCGGUGCCGGUgcggCAGGUg -3'
miRNA:   3'- -CguCaG-GACGa--GCCGCGGCCG----GUCCA- -5'
30554 5' -63 NC_006548.1 + 21866 0.66 0.255489
Target:  5'- gGUGGU-CUGCUCGGUGgcaUGGCCgAGGg -3'
miRNA:   3'- -CGUCAgGACGAGCCGCg--GCCGG-UCCa -5'
30554 5' -63 NC_006548.1 + 8389 0.66 0.254845
Target:  5'- gGCcGUCUUcucuacGCUCGGCcagGCCGGCCucgaugaGGGUc -3'
miRNA:   3'- -CGuCAGGA------CGAGCCG---CGGCCGG-------UCCA- -5'
30554 5' -63 NC_006548.1 + 29358 0.66 0.249109
Target:  5'- cGCAGagCCaaagugagcUGgUCGGCgGCCaGCCGGGUa -3'
miRNA:   3'- -CGUCa-GG---------ACgAGCCG-CGGcCGGUCCA- -5'
30554 5' -63 NC_006548.1 + 29704 0.66 0.242244
Target:  5'- gGCuGUCCucgaucaccagcaUGUUCGGCuucGCCgaggguGGCCAGGUc -3'
miRNA:   3'- -CGuCAGG-------------ACGAGCCG---CGG------CCGGUCCA- -5'
30554 5' -63 NC_006548.1 + 1387 0.67 0.224898
Target:  5'- ----aUCUGCcCGcCGCCGGCCAGGa -3'
miRNA:   3'- cgucaGGACGaGCcGCGGCCGGUCCa -5'
30554 5' -63 NC_006548.1 + 22304 0.67 0.224898
Target:  5'- gGUGGUgCCguUGCg-GGUGUCGGCCAGGc -3'
miRNA:   3'- -CGUCA-GG--ACGagCCGCGGCCGGUCCa -5'
30554 5' -63 NC_006548.1 + 6875 0.67 0.219166
Target:  5'- cGCAGUUCggugaccgGCUcCGGCGCCaauaGCUGGGa -3'
miRNA:   3'- -CGUCAGGa-------CGA-GCCGCGGc---CGGUCCa -5'
30554 5' -63 NC_006548.1 + 12946 0.68 0.19235
Target:  5'- cGCGGUgCUGUgCGGCGCa-GCCGuGGUg -3'
miRNA:   3'- -CGUCAgGACGaGCCGCGgcCGGU-CCA- -5'
30554 5' -63 NC_006548.1 + 13741 0.68 0.19235
Target:  5'- cGCGG-CCUGCUCgauGGCGuCCaGCC-GGUa -3'
miRNA:   3'- -CGUCaGGACGAG---CCGC-GGcCGGuCCA- -5'
30554 5' -63 NC_006548.1 + 2441 0.68 0.19235
Target:  5'- cCAG-CCgGCUCGGauggaaaacCGCCGGCCuggcGGGUg -3'
miRNA:   3'- cGUCaGGaCGAGCC---------GCGGCCGG----UCCA- -5'
30554 5' -63 NC_006548.1 + 28989 0.68 0.190334
Target:  5'- uGCAGgucgCCguacuucuucucgauCUCGGCGCCGGCCGccucgacGGUu -3'
miRNA:   3'- -CGUCa---GGac-------------GAGCCGCGGCCGGU-------CCA- -5'
30554 5' -63 NC_006548.1 + 32485 0.68 0.18053
Target:  5'- uGCAGcgCCgcgaacggcaacgGCggcgaCGGCuGCCGGCCAGGc -3'
miRNA:   3'- -CGUCa-GGa------------CGa----GCCG-CGGCCGGUCCa -5'
30554 5' -63 NC_006548.1 + 13443 0.69 0.163568
Target:  5'- cGCuuUCCaauaGCUCGGCGUCagaaccggcggcgGGCCAGGUc -3'
miRNA:   3'- -CGucAGGa---CGAGCCGCGG-------------CCGGUCCA- -5'
30554 5' -63 NC_006548.1 + 3976 0.69 0.155426
Target:  5'- gGCAGUCCUGCUCgcucuGGCGUCaacauccaucaGCgGGGUg -3'
miRNA:   3'- -CGUCAGGACGAG-----CCGCGGc----------CGgUCCA- -5'
30554 5' -63 NC_006548.1 + 4134 0.69 0.151289
Target:  5'- uCAG-CCUGCUCGGCGUCGaUguGGg -3'
miRNA:   3'- cGUCaGGACGAGCCGCGGCcGguCCa -5'
30554 5' -63 NC_006548.1 + 9517 0.75 0.057035
Target:  5'- aGCAGgaggCUGCUCuggugcGCGUCGGCCAGGUg -3'
miRNA:   3'- -CGUCag--GACGAGc-----CGCGGCCGGUCCA- -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.