miRNA display CGI


Results 1 - 20 of 32 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
30433 3' -65.2 NC_006548.1 + 7795 0.66 0.226046
Target:  5'- aGGCUcugcgcgaccuCCgcgaggacaaggaagCGcagGGGCGCCUGCUGGCCa -3'
miRNA:   3'- gCCGG-----------GGa--------------GCa--UCCGCGGGUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 29648 0.66 0.22548
Target:  5'- gCGGCuCCCUgaauGGCaGCCgCACCaGCCa -3'
miRNA:   3'- -GCCG-GGGAgcauCCG-CGG-GUGGcCGG- -5'
30433 3' -65.2 NC_006548.1 + 37404 0.66 0.224915
Target:  5'- uGGCCgCUagucggcagCGUGGcgacGCGCCCcuugacgACCGGCUg -3'
miRNA:   3'- gCCGGgGA---------GCAUC----CGCGGG-------UGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 15760 0.66 0.224915
Target:  5'- uGGCCCUgguuccagcgcUGUGaGCGCaucugcaucgacgCCACCGGCCu -3'
miRNA:   3'- gCCGGGGa----------GCAUcCGCG-------------GGUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 1806 0.66 0.223789
Target:  5'- uGGCUCUgaUCGUGGGCGagcaguuggauggaCCUGCC-GCCa -3'
miRNA:   3'- gCCGGGG--AGCAUCCGC--------------GGGUGGcCGG- -5'
30433 3' -65.2 NC_006548.1 + 12519 0.66 0.21441
Target:  5'- uGGCCUCggcauccGGCGCCgaccaGCUGGCCu -3'
miRNA:   3'- gCCGGGGagcau--CCGCGGg----UGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 30036 0.66 0.209052
Target:  5'- aGG-CUCUUGUAGGCGCgaagcaGCCaGGCCc -3'
miRNA:   3'- gCCgGGGAGCAUCCGCGgg----UGG-CCGG- -5'
30433 3' -65.2 NC_006548.1 + 14317 0.66 0.208523
Target:  5'- cCGGCCa-UCGgccAGGCGCCC-CUcgauguaGGCCc -3'
miRNA:   3'- -GCCGGggAGCa--UCCGCGGGuGG-------CCGG- -5'
30433 3' -65.2 NC_006548.1 + 22070 0.66 0.200719
Target:  5'- aCGGCuCCCUCGgcgacgagggcauGGUGCCgAU-GGCCu -3'
miRNA:   3'- -GCCG-GGGAGCau-----------CCGCGGgUGgCCGG- -5'
30433 3' -65.2 NC_006548.1 + 2866 0.67 0.19566
Target:  5'- uGGCCgCCU-GcAGGCGCUCGucgaaggcgauguugUCGGCCa -3'
miRNA:   3'- gCCGG-GGAgCaUCCGCGGGU---------------GGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 30669 0.67 0.183969
Target:  5'- gGGCUCCUacCGU-GGCGacguugcaaCCCGCUGGUCc -3'
miRNA:   3'- gCCGGGGA--GCAuCCGC---------GGGUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 18742 0.67 0.183969
Target:  5'- uCGGCCagugacaacgCCUU--GGGCaGCCCugCGGCg -3'
miRNA:   3'- -GCCGG----------GGAGcaUCCG-CGGGugGCCGg -5'
30433 3' -65.2 NC_006548.1 + 23777 0.67 0.165854
Target:  5'- uGGCCCaggagacucuCUCacccaaGCCCGCCGGCCa -3'
miRNA:   3'- gCCGGG----------GAGcauccgCGGGUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 2317 0.67 0.165854
Target:  5'- uCGGCUgCgCGgcGGCGCCggagcugACCGGCUa -3'
miRNA:   3'- -GCCGGgGaGCauCCGCGGg------UGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 1165 0.68 0.154953
Target:  5'- aGGCUCgCUCGcgaauUGGGCGUCagcgaugcugagcugCGCCGGCUg -3'
miRNA:   3'- gCCGGG-GAGC-----AUCCGCGG---------------GUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 36876 0.68 0.149356
Target:  5'- aCGGUgugcugaCCgugUCGUGGGCGCaCCgcaACCGGCUg -3'
miRNA:   3'- -GCCGg------GG---AGCAUCCGCG-GG---UGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 22420 0.68 0.149356
Target:  5'- gCGGCUuaauCCUCaacUGGGCGgCCGCUcuGGCCg -3'
miRNA:   3'- -GCCGG----GGAGc--AUCCGCgGGUGG--CCGG- -5'
30433 3' -65.2 NC_006548.1 + 19997 0.68 0.149356
Target:  5'- aGGCCCCgcUCGUcaucGGCcacCCCaagcucaaugcGCCGGCCu -3'
miRNA:   3'- gCCGGGG--AGCAu---CCGc--GGG-----------UGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 36334 0.68 0.149356
Target:  5'- aGGCaUCCUCGcugcgcUGGGCaugcgGCCguCCGGCCu -3'
miRNA:   3'- gCCG-GGGAGC------AUCCG-----CGGguGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 11881 0.68 0.145471
Target:  5'- uCGGCCaaCCuggaggUCGUAGGUGCCUgGCUGcGCCg -3'
miRNA:   3'- -GCCGG--GG------AGCAUCCGCGGG-UGGC-CGG- -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.