miRNA display CGI


Results 1 - 20 of 39 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
24931 3' -55.7 NC_005284.1 + 4360 0.66 0.710987
Target:  5'- -uUCGAGCACUUGcUCcgGGUGCGaGUCg -3'
miRNA:   3'- gcAGCUCGUGGACuAG--CCGCGUgUAG- -5'
24931 3' -55.7 NC_005284.1 + 46042 0.66 0.710987
Target:  5'- gCGUCGAGCagGCCUcGA-CGGCaaGCGC-UCc -3'
miRNA:   3'- -GCAGCUCG--UGGA-CUaGCCG--CGUGuAG- -5'
24931 3' -55.7 NC_005284.1 + 13137 0.66 0.710987
Target:  5'- uCGUUGAGaCACCUGAgaUCGaGCGga-GUCg -3'
miRNA:   3'- -GCAGCUC-GUGGACU--AGC-CGCgugUAG- -5'
24931 3' -55.7 NC_005284.1 + 6613 0.66 0.710987
Target:  5'- uGUCGcGCGCCUGA---GCGCcuuCGUCg -3'
miRNA:   3'- gCAGCuCGUGGACUagcCGCGu--GUAG- -5'
24931 3' -55.7 NC_005284.1 + 29848 0.66 0.709915
Target:  5'- cCGUCGAcggucaagccgacGCAUCucgcgaUGGUCGGCGCcgGCGUg -3'
miRNA:   3'- -GCAGCU-------------CGUGG------ACUAGCCGCG--UGUAg -5'
24931 3' -55.7 NC_005284.1 + 18573 0.66 0.700234
Target:  5'- gGUCGuGUcgCUGAcugCGGCGgGCAUCg -3'
miRNA:   3'- gCAGCuCGugGACUa--GCCGCgUGUAG- -5'
24931 3' -55.7 NC_005284.1 + 8761 0.66 0.700234
Target:  5'- cCGcCGcAGCGgCgu-UCGGCGUGCAUCa -3'
miRNA:   3'- -GCaGC-UCGUgGacuAGCCGCGUGUAG- -5'
24931 3' -55.7 NC_005284.1 + 15933 0.66 0.700234
Target:  5'- -uUCcGGCGuuCCUGAcgUCGGCGCGCGa- -3'
miRNA:   3'- gcAGcUCGU--GGACU--AGCCGCGUGUag -5'
24931 3' -55.7 NC_005284.1 + 25523 0.66 0.678541
Target:  5'- -aUCgGAGCgGCCgucGUCGuGCGCGCGUCg -3'
miRNA:   3'- gcAG-CUCG-UGGac-UAGC-CGCGUGUAG- -5'
24931 3' -55.7 NC_005284.1 + 9807 0.66 0.678541
Target:  5'- aCGUCGccGGCAgUcagGAaaUCGGCGCgcGCAUCa -3'
miRNA:   3'- -GCAGC--UCGUgGa--CU--AGCCGCG--UGUAG- -5'
24931 3' -55.7 NC_005284.1 + 45212 0.66 0.667623
Target:  5'- uGUCGAacgGCACgaGAUCGaGCGCGuggAUCa -3'
miRNA:   3'- gCAGCU---CGUGgaCUAGC-CGCGUg--UAG- -5'
24931 3' -55.7 NC_005284.1 + 5466 0.66 0.656672
Target:  5'- aGUCGAGCAagccggcggCUGAUCGGgGUucuGCAa- -3'
miRNA:   3'- gCAGCUCGUg--------GACUAGCCgCG---UGUag -5'
24931 3' -55.7 NC_005284.1 + 7075 0.67 0.645698
Target:  5'- cCGgCGAGCGCCauGUCGaGCGCGCc-- -3'
miRNA:   3'- -GCaGCUCGUGGacUAGC-CGCGUGuag -5'
24931 3' -55.7 NC_005284.1 + 19797 0.67 0.612742
Target:  5'- cCGUCGAGCA--UGA--GGCGCGCcgCu -3'
miRNA:   3'- -GCAGCUCGUggACUagCCGCGUGuaG- -5'
24931 3' -55.7 NC_005284.1 + 10583 0.67 0.612742
Target:  5'- gCGUCGAcgagaaaucGCGCgaGAUCGgGCGaCugAUCg -3'
miRNA:   3'- -GCAGCU---------CGUGgaCUAGC-CGC-GugUAG- -5'
24931 3' -55.7 NC_005284.1 + 7448 0.68 0.590839
Target:  5'- uCGaCGAaCGCCaGAUCGGC-CGCGUCg -3'
miRNA:   3'- -GCaGCUcGUGGaCUAGCCGcGUGUAG- -5'
24931 3' -55.7 NC_005284.1 + 45133 0.68 0.579935
Target:  5'- uCGUCGAGCugaugggcaagGCgUGGUCGaCGCACGg- -3'
miRNA:   3'- -GCAGCUCG-----------UGgACUAGCcGCGUGUag -5'
24931 3' -55.7 NC_005284.1 + 7155 0.68 0.579935
Target:  5'- aGUCG-GCaaGCC-GAUCGGCGUcggugaACGUCg -3'
miRNA:   3'- gCAGCuCG--UGGaCUAGCCGCG------UGUAG- -5'
24931 3' -55.7 NC_005284.1 + 17878 0.68 0.569074
Target:  5'- gGcCGGcCGCCgGAUCGGCggGCGCAUCc -3'
miRNA:   3'- gCaGCUcGUGGaCUAGCCG--CGUGUAG- -5'
24931 3' -55.7 NC_005284.1 + 39749 0.68 0.569074
Target:  5'- uGUCGAGCACCUGuu--GCGCGa--- -3'
miRNA:   3'- gCAGCUCGUGGACuagcCGCGUguag -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.