miRNA display CGI


Results 1 - 20 of 26 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
12008 5' -58.5 NC_003278.1 + 8293 0.66 0.44647
Target:  5'- gUCGACccagGCGaccGCCUUGAGGCUGAg -3'
miRNA:   3'- -GGCUGuuagCGC---CGGAGCUCCGGCUa -5'
12008 5' -58.5 NC_003278.1 + 29633 0.66 0.44647
Target:  5'- uCCGuuccUCGaGGCCaccggCGAGGCCGGUg -3'
miRNA:   3'- -GGCuguuAGCgCCGGa----GCUCCGGCUA- -5'
12008 5' -58.5 NC_003278.1 + 10438 0.66 0.436681
Target:  5'- cCCGGcCAAUgGCugacaGCCUCGAGGCUc-- -3'
miRNA:   3'- -GGCU-GUUAgCGc----CGGAGCUCCGGcua -5'
12008 5' -58.5 NC_003278.1 + 27299 0.66 0.408076
Target:  5'- -gGuuGGUUGCGGCCgCGAGGUCGc- -3'
miRNA:   3'- ggCugUUAGCGCCGGaGCUCCGGCua -5'
12008 5' -58.5 NC_003278.1 + 25465 0.66 0.408076
Target:  5'- -gGACGcGUUGCaGGCCUCGAGuGuuGAc -3'
miRNA:   3'- ggCUGU-UAGCG-CCGGAGCUC-CggCUa -5'
12008 5' -58.5 NC_003278.1 + 28879 0.67 0.371814
Target:  5'- aUGACg--CGCGGUCUUGAGGUCu-- -3'
miRNA:   3'- gGCUGuuaGCGCCGGAGCUCCGGcua -5'
12008 5' -58.5 NC_003278.1 + 31411 0.67 0.363097
Target:  5'- uUGGCGc-CGCcGCCUUGAGGCUGAUu -3'
miRNA:   3'- gGCUGUuaGCGcCGGAGCUCCGGCUA- -5'
12008 5' -58.5 NC_003278.1 + 27495 0.68 0.346094
Target:  5'- uUCGGCcaugAAUUGUGGgaCCUCGAGGCCu-- -3'
miRNA:   3'- -GGCUG----UUAGCGCC--GGAGCUCCGGcua -5'
12008 5' -58.5 NC_003278.1 + 29697 0.68 0.346094
Target:  5'- aCCGGCc-UCGCcgguGGCCUCGAGGaaCGGa -3'
miRNA:   3'- -GGCUGuuAGCG----CCGGAGCUCCg-GCUa -5'
12008 5' -58.5 NC_003278.1 + 17074 0.68 0.329669
Target:  5'- gCCGAUGAUCGCGGUggCGAuGGUgCGAa -3'
miRNA:   3'- -GGCUGUUAGCGCCGgaGCU-CCG-GCUa -5'
12008 5' -58.5 NC_003278.1 + 7789 0.68 0.329669
Target:  5'- gCCGGCGugaccGagGCGGuCCUCGAGG-CGAa -3'
miRNA:   3'- -GGCUGU-----UagCGCC-GGAGCUCCgGCUa -5'
12008 5' -58.5 NC_003278.1 + 18966 0.69 0.269787
Target:  5'- uUGAUggUCGCGGCCacaUCGAacugcagcaGGUCGAg -3'
miRNA:   3'- gGCUGuuAGCGCCGG---AGCU---------CCGGCUa -5'
12008 5' -58.5 NC_003278.1 + 34201 0.69 0.269787
Target:  5'- aCCGAUGcgCGCGGUUUCgguaccgaggauGAGGUCGAUu -3'
miRNA:   3'- -GGCUGUuaGCGCCGGAG------------CUCCGGCUA- -5'
12008 5' -58.5 NC_003278.1 + 22586 0.69 0.267036
Target:  5'- gCUGAguGUCacgcucaacugauCGGCCUCGAGGCCGc- -3'
miRNA:   3'- -GGCUguUAGc------------GCCGGAGCUCCGGCua -5'
12008 5' -58.5 NC_003278.1 + 27852 0.7 0.2497
Target:  5'- cUCGGCcAUgGCGGCUUCGuacuGGCUGAc -3'
miRNA:   3'- -GGCUGuUAgCGCCGGAGCu---CCGGCUa -5'
12008 5' -58.5 NC_003278.1 + 13127 0.7 0.243284
Target:  5'- gCCGACGGUCGCGucggcgauGCCUC--GGCCGu- -3'
miRNA:   3'- -GGCUGUUAGCGC--------CGGAGcuCCGGCua -5'
12008 5' -58.5 NC_003278.1 + 9618 0.7 0.224857
Target:  5'- cCUGGCGcUCgcgggaaaggGCGGCCUCGAgGGCCGu- -3'
miRNA:   3'- -GGCUGUuAG----------CGCCGGAGCU-CCGGCua -5'
12008 5' -58.5 NC_003278.1 + 20638 0.7 0.224857
Target:  5'- gCGGCGAcccUCGCGGCCUCGcccucGGGuuGu- -3'
miRNA:   3'- gGCUGUU---AGCGCCGGAGC-----UCCggCua -5'
12008 5' -58.5 NC_003278.1 + 14476 0.71 0.207628
Target:  5'- aCCGcCAcgaacuucccGUCgGCGuCCUCGAGGCCGAUc -3'
miRNA:   3'- -GGCuGU----------UAG-CGCcGGAGCUCCGGCUA- -5'
12008 5' -58.5 NC_003278.1 + 14948 0.71 0.207074
Target:  5'- gCCGGCuggcaGUGGCUgcguugcccguaaUCGAGGCCGGUa -3'
miRNA:   3'- -GGCUGuuag-CGCCGG-------------AGCUCCGGCUA- -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.