miRNA display CGI


Results 1 - 20 of 30 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
24876 3' -55.8 NC_005284.1 + 17032 0.65 0.704101
Target:  5'- -uCCCCGcuuGCCGCGCGCGggauUUCCucucggauaagcgcGGCc -3'
miRNA:   3'- guGGGGUau-CGGUGCGUGU----AAGG--------------CCG- -5'
24876 3' -55.8 NC_005284.1 + 23355 0.66 0.696538
Target:  5'- gCGCgCCGcAGCgGCGCACGUcgCCcGCg -3'
miRNA:   3'- -GUGgGGUaUCGgUGCGUGUAa-GGcCG- -5'
24876 3' -55.8 NC_005284.1 + 21988 0.66 0.696538
Target:  5'- cCGCCCCGcaacCCGCGCAgGccgacgcaCCGGCa -3'
miRNA:   3'- -GUGGGGUauc-GGUGCGUgUaa------GGCCG- -5'
24876 3' -55.8 NC_005284.1 + 21268 0.66 0.674778
Target:  5'- uCGCCUacaaCAUcgGGCCGCGCGCcuacUgCGGCa -3'
miRNA:   3'- -GUGGG----GUA--UCGGUGCGUGua--AgGCCG- -5'
24876 3' -55.8 NC_005284.1 + 38634 0.66 0.663832
Target:  5'- aGCCCCAUcAGCgAUGUGCcccaCGGCu -3'
miRNA:   3'- gUGGGGUA-UCGgUGCGUGuaagGCCG- -5'
24876 3' -55.8 NC_005284.1 + 4104 0.66 0.663832
Target:  5'- aAgUCCAUGGCCGCGguUAUcgccaaUCgCGGCc -3'
miRNA:   3'- gUgGGGUAUCGGUGCguGUA------AG-GCCG- -5'
24876 3' -55.8 NC_005284.1 + 40167 0.66 0.652856
Target:  5'- cUAUCUCGcgaaccGCCACGUGCGUcgcgaccaacUCCGGCg -3'
miRNA:   3'- -GUGGGGUau----CGGUGCGUGUA----------AGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 40812 0.67 0.641861
Target:  5'- gACUCCGcacAGCCuuacuauuGCGUGCGcgUCCGGCa -3'
miRNA:   3'- gUGGGGUa--UCGG--------UGCGUGUa-AGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 39058 0.67 0.641861
Target:  5'- cCGCCCCAca-CCGCGCGCGUcgacagacgcCCGuGCa -3'
miRNA:   3'- -GUGGGGUaucGGUGCGUGUAa---------GGC-CG- -5'
24876 3' -55.8 NC_005284.1 + 16060 0.67 0.630857
Target:  5'- uGCCguCCGgcGCCAUgcaGCGCAUugagCCGGCa -3'
miRNA:   3'- gUGG--GGUauCGGUG---CGUGUAa---GGCCG- -5'
24876 3' -55.8 NC_005284.1 + 30843 0.67 0.608863
Target:  5'- uCACCCCAUuGCUugaacaggaACgGCACAUcUgCGGCa -3'
miRNA:   3'- -GUGGGGUAuCGG---------UG-CGUGUA-AgGCCG- -5'
24876 3' -55.8 NC_005284.1 + 54598 0.67 0.597891
Target:  5'- uGCCCCGc-GCCuCGCcgACAauccagUCCGGCg -3'
miRNA:   3'- gUGGGGUauCGGuGCG--UGUa-----AGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 21955 0.67 0.586948
Target:  5'- gGCCUacagGGCUACGUgugcGCAgUCCGGCc -3'
miRNA:   3'- gUGGGgua-UCGGUGCG----UGUaAGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 23288 0.68 0.576043
Target:  5'- gACCaCUGUuauGCCgagGCGCGCAaugcgcgcuuUUCCGGCg -3'
miRNA:   3'- gUGG-GGUAu--CGG---UGCGUGU----------AAGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 14191 0.68 0.55438
Target:  5'- gGCCCCccaaaggggcGGCCGuCGCugAccUUCCGGUa -3'
miRNA:   3'- gUGGGGua--------UCGGU-GCGugU--AAGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 5810 0.68 0.55438
Target:  5'- aGCCCCGUccAGCCGCGCAgCA--CC-GCu -3'
miRNA:   3'- gUGGGGUA--UCGGUGCGU-GUaaGGcCG- -5'
24876 3' -55.8 NC_005284.1 + 20808 0.68 0.543637
Target:  5'- gCACCCCcugucgagcAGCC-CGCAgCAgcgCCGGCc -3'
miRNA:   3'- -GUGGGGua-------UCGGuGCGU-GUaa-GGCCG- -5'
24876 3' -55.8 NC_005284.1 + 34820 0.68 0.532964
Target:  5'- aACCCCGUAGaCAaGC-CAgcCCGGCa -3'
miRNA:   3'- gUGGGGUAUCgGUgCGuGUaaGGCCG- -5'
24876 3' -55.8 NC_005284.1 + 27883 0.69 0.491091
Target:  5'- gAUCCCAUcauGUCGCGCauGCAUaagcCCGGCg -3'
miRNA:   3'- gUGGGGUAu--CGGUGCG--UGUAa---GGCCG- -5'
24876 3' -55.8 NC_005284.1 + 33573 0.69 0.480859
Target:  5'- gCGCCCCcucaAGCCGggcgUGCACGUcaggaCCGGCu -3'
miRNA:   3'- -GUGGGGua--UCGGU----GCGUGUAa----GGCCG- -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.