miRNA display CGI


Results 1 - 20 of 27 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
30819 3' -61.9 NC_006552.1 + 3589 0.67 0.339329
Target:  5'- -cGCCGGCGCCGGcagGacuuGCCGCuGCcUGc -3'
miRNA:   3'- uaCGGUCGCGGCCa--Cg---CGGCG-UGuAC- -5'
30819 3' -61.9 NC_006552.1 + 7620 0.7 0.207643
Target:  5'- -aGaCCGGCGgCGGUuuGCCGCGCAUu -3'
miRNA:   3'- uaC-GGUCGCgGCCAcgCGGCGUGUAc -5'
30819 3' -61.9 NC_006552.1 + 7716 0.69 0.254113
Target:  5'- -aGCCGGCGCau-UGCGCUGCGguUGg -3'
miRNA:   3'- uaCGGUCGCGgccACGCGGCGUguAC- -5'
30819 3' -61.9 NC_006552.1 + 8131 0.68 0.266992
Target:  5'- -aGCCAucuGCGCCaGGUG-GUCGCGCAg- -3'
miRNA:   3'- uaCGGU---CGCGG-CCACgCGGCGUGUac -5'
30819 3' -61.9 NC_006552.1 + 15469 0.66 0.389119
Target:  5'- -cGCCAGCgauacaGCCGGUugugcggcuuGCGCCugcuGCGCGUc -3'
miRNA:   3'- uaCGGUCG------CGGCCA----------CGCGG----CGUGUAc -5'
30819 3' -61.9 NC_006552.1 + 15627 0.66 0.389119
Target:  5'- -gGCCAGCGgcguuCUGGUgGCGCUGCuCAUc -3'
miRNA:   3'- uaCGGUCGC-----GGCCA-CGCGGCGuGUAc -5'
30819 3' -61.9 NC_006552.1 + 19511 0.66 0.366965
Target:  5'- cUGCCGGagccacugauacuaGCCGacacGUGCGCCGCugAc- -3'
miRNA:   3'- uACGGUCg-------------CGGC----CACGCGGCGugUac -5'
30819 3' -61.9 NC_006552.1 + 21178 0.68 0.260488
Target:  5'- -gGCC-GCGUCGGUGC-CgGCACAUc -3'
miRNA:   3'- uaCGGuCGCGGCCACGcGgCGUGUAc -5'
30819 3' -61.9 NC_006552.1 + 22594 0.66 0.372
Target:  5'- gAUGCUGGCGuaCCGG-GCGUCGCcgauggcgACAUGc -3'
miRNA:   3'- -UACGGUCGC--GGCCaCGCGGCG--------UGUAC- -5'
30819 3' -61.9 NC_006552.1 + 24735 0.67 0.331493
Target:  5'- -aGCCGGCGCCGG-GC-CUGCuCGg- -3'
miRNA:   3'- uaCGGUCGCGGCCaCGcGGCGuGUac -5'
30819 3' -61.9 NC_006552.1 + 26193 0.66 0.397871
Target:  5'- -cGCCAGUagGCCaGGUGCuuGCCGgucgGCAUGg -3'
miRNA:   3'- uaCGGUCG--CGG-CCACG--CGGCg---UGUAC- -5'
30819 3' -61.9 NC_006552.1 + 26710 0.67 0.316224
Target:  5'- -cGCCcagGGCGCCGaagGCGUCGC-CGUGc -3'
miRNA:   3'- uaCGG---UCGCGGCca-CGCGGCGuGUAC- -5'
30819 3' -61.9 NC_006552.1 + 30568 0.66 0.39699
Target:  5'- -cGCCgguccacAGCGCCGGgauugguagcaGCGUCGCACu-- -3'
miRNA:   3'- uaCGG-------UCGCGGCCa----------CGCGGCGUGuac -5'
30819 3' -61.9 NC_006552.1 + 38244 0.66 0.372
Target:  5'- -aGgCGGCGCCGGUcugcggaucGCGCUGCGg--- -3'
miRNA:   3'- uaCgGUCGCGGCCA---------CGCGGCGUguac -5'
30819 3' -61.9 NC_006552.1 + 41147 0.72 0.151786
Target:  5'- gAUGCCgcAGCGCUGGU-CGCCGUugaacagcGCAUGg -3'
miRNA:   3'- -UACGG--UCGCGGCCAcGCGGCG--------UGUAC- -5'
30819 3' -61.9 NC_006552.1 + 47950 0.67 0.308791
Target:  5'- -gGCCcGCGCCugcaaGGUGaaaGCCGCAUAa- -3'
miRNA:   3'- uaCGGuCGCGG-----CCACg--CGGCGUGUac -5'
30819 3' -61.9 NC_006552.1 + 48877 0.76 0.074795
Target:  5'- -gGCCA-CGCCGGUGCuGCUGCGCAa- -3'
miRNA:   3'- uaCGGUcGCGGCCACG-CGGCGUGUac -5'
30819 3' -61.9 NC_006552.1 + 51893 0.75 0.093285
Target:  5'- -aGCCAGCaaGCCGaaaUGCGCCGcCGCAUGg -3'
miRNA:   3'- uaCGGUCG--CGGCc--ACGCGGC-GUGUAC- -5'
30819 3' -61.9 NC_006552.1 + 52321 0.67 0.323792
Target:  5'- -aGCCAccucGCGCCGGccaCGCCgGCACAg- -3'
miRNA:   3'- uaCGGU----CGCGGCCac-GCGG-CGUGUac -5'
30819 3' -61.9 NC_006552.1 + 52941 0.67 0.316224
Target:  5'- -cGCCuGCGCCGGcGCccGCCGC-CGg- -3'
miRNA:   3'- uaCGGuCGCGGCCaCG--CGGCGuGUac -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.