miRNA display CGI


Results 1 - 20 of 53 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
30212 3' -59.2 NC_006273.1 + 200049 1.11 0.001875
Target:  5'- uACCGGGCGCCUCCGAGUCCAUAUCCCg -3'
miRNA:   3'- -UGGCCCGCGGAGGCUCAGGUAUAGGG- -5'
30212 3' -59.2 NC_006273.1 + 193355 0.74 0.447548
Target:  5'- aACCGGGCGCCUCCcgGAGgcucuuuggcUCCAgugCCg -3'
miRNA:   3'- -UGGCCCGCGGAGG--CUC----------AGGUauaGGg -5'
30212 3' -59.2 NC_006273.1 + 206658 0.72 0.537805
Target:  5'- cCUGGGCGCCU-CGGGcgCCAUGUaCCUa -3'
miRNA:   3'- uGGCCCGCGGAgGCUCa-GGUAUA-GGG- -5'
30212 3' -59.2 NC_006273.1 + 188151 0.72 0.547208
Target:  5'- gGCCGGGuCGCCgaguUCCGGGUCgGgcacAUCCa -3'
miRNA:   3'- -UGGCCC-GCGG----AGGCUCAGgUa---UAGGg -5'
30212 3' -59.2 NC_006273.1 + 189532 0.72 0.556662
Target:  5'- uCCaGGGcCGCCgacaCCGAGUCCGUAUgaCCg -3'
miRNA:   3'- uGG-CCC-GCGGa---GGCUCAGGUAUAg-GG- -5'
30212 3' -59.2 NC_006273.1 + 94397 0.71 0.59489
Target:  5'- cACCGGGCGCggcccgCUCCGGaccucggCCGgggGUCCCu -3'
miRNA:   3'- -UGGCCCGCG------GAGGCUca-----GGUa--UAGGG- -5'
30212 3' -59.2 NC_006273.1 + 210007 0.71 0.59489
Target:  5'- -gCGGGuCGCCagCCGGGUCUcuuggAUCCCg -3'
miRNA:   3'- ugGCCC-GCGGa-GGCUCAGGua---UAGGG- -5'
30212 3' -59.2 NC_006273.1 + 141431 0.71 0.620936
Target:  5'- uACCGGcgcaugcgcagggcGCGCCUCCcgcGGGUCCugg-CCCg -3'
miRNA:   3'- -UGGCC--------------CGCGGAGG---CUCAGGuauaGGG- -5'
30212 3' -59.2 NC_006273.1 + 163664 0.71 0.623836
Target:  5'- cGCCGGGCGaCgUCgGGGUCgGg--CCCg -3'
miRNA:   3'- -UGGCCCGC-GgAGgCUCAGgUauaGGG- -5'
30212 3' -59.2 NC_006273.1 + 102896 0.71 0.633504
Target:  5'- gACCGGGUGCCggUCgGGGUgCGUGUagCCa -3'
miRNA:   3'- -UGGCCCGCGG--AGgCUCAgGUAUAg-GG- -5'
30212 3' -59.2 NC_006273.1 + 200634 0.7 0.652831
Target:  5'- gGCCGGG-GCa-CCGAGUCCGcgaGUCUCa -3'
miRNA:   3'- -UGGCCCgCGgaGGCUCAGGUa--UAGGG- -5'
30212 3' -59.2 NC_006273.1 + 194903 0.7 0.652831
Target:  5'- aGCCGGGcCGCCUcgaccacgCCGA---CGUAUCCCg -3'
miRNA:   3'- -UGGCCC-GCGGA--------GGCUcagGUAUAGGG- -5'
30212 3' -59.2 NC_006273.1 + 227613 0.7 0.662476
Target:  5'- aGCCGGGCGCUccggCGAGaCCAUgccAUCCUc -3'
miRNA:   3'- -UGGCCCGCGGag--GCUCaGGUA---UAGGG- -5'
30212 3' -59.2 NC_006273.1 + 178359 0.7 0.691251
Target:  5'- gGCCGcGGaCGCCUCCuccuccucGUCCcaGUCCCg -3'
miRNA:   3'- -UGGC-CC-GCGGAGGcu------CAGGuaUAGGG- -5'
30212 3' -59.2 NC_006273.1 + 152053 0.7 0.691251
Target:  5'- cGCCGGGUcCCaccacgCCGGGUCCA---CCCg -3'
miRNA:   3'- -UGGCCCGcGGa-----GGCUCAGGUauaGGG- -5'
30212 3' -59.2 NC_006273.1 + 177565 0.69 0.710227
Target:  5'- cGCCGGGCGUCUUCGcAGcguUCCcgGUCg- -3'
miRNA:   3'- -UGGCCCGCGGAGGC-UC---AGGuaUAGgg -5'
30212 3' -59.2 NC_006273.1 + 35985 0.69 0.728966
Target:  5'- uUCGGGCGCUUgUGGGUCCAggcAUCa- -3'
miRNA:   3'- uGGCCCGCGGAgGCUCAGGUa--UAGgg -5'
30212 3' -59.2 NC_006273.1 + 71509 0.69 0.747406
Target:  5'- cACCGGGUgggugGCCUCUGAGaUCUcgGUCg- -3'
miRNA:   3'- -UGGCCCG-----CGGAGGCUC-AGGuaUAGgg -5'
30212 3' -59.2 NC_006273.1 + 195979 0.68 0.765486
Target:  5'- cGCCGGGCGCCccUCCGAGUagcggcaaCAacagcaacuuuUGgcacggCCCg -3'
miRNA:   3'- -UGGCCCGCGG--AGGCUCAg-------GU-----------AUa-----GGG- -5'
30212 3' -59.2 NC_006273.1 + 78529 0.68 0.765486
Target:  5'- cACCGGGCGCCgucaggaCGuaaaAGaCCcgAUCCCc -3'
miRNA:   3'- -UGGCCCGCGGag-----GC----UCaGGuaUAGGG- -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.