miRNA display CGI


Results 1 - 20 of 90 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
11433 3' -62.6 NC_003085.1 + 48985 0.66 0.313637
Target:  5'- aGCCUCGCCcguGGGcaccuGCAaCAGCGCCg -3'
miRNA:   3'- -CGGGGCGG---CCCagcu-CGUcGUCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 48593 0.77 0.056799
Target:  5'- cGCCaCCGCCGGGaaggcgCGAGCGauGCgcuuGGCGCCg -3'
miRNA:   3'- -CGG-GGCGGCCCa-----GCUCGU--CG----UCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 47213 0.67 0.278288
Target:  5'- gGCCCC-CCGG--UGGGCAgGCAuugcGCACCa -3'
miRNA:   3'- -CGGGGcGGCCcaGCUCGU-CGU----CGUGG- -5'
11433 3' -62.6 NC_003085.1 + 46208 0.67 0.294845
Target:  5'- -gCCCGCucauggCGGG-CGAGUgugugggccggcccaGGUAGCGCCg -3'
miRNA:   3'- cgGGGCG------GCCCaGCUCG---------------UCGUCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 44273 0.67 0.27161
Target:  5'- cGgCCUGCCuGGcuuguuccucccGUCGAGCAGCAauCGCCg -3'
miRNA:   3'- -CgGGGCGG-CC------------CAGCUCGUCGUc-GUGG- -5'
11433 3' -62.6 NC_003085.1 + 43466 0.66 0.352283
Target:  5'- cGCCCaGCCGuaGG-CGAGCcaacuGGCaAGCAUCg -3'
miRNA:   3'- -CGGGgCGGC--CCaGCUCG-----UCG-UCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 43349 0.66 0.352283
Target:  5'- uCCCCGCCcuucgcGGcGUCGuaGGCGGCAaGCAg- -3'
miRNA:   3'- cGGGGCGG------CC-CAGC--UCGUCGU-CGUgg -5'
11433 3' -62.6 NC_003085.1 + 42870 0.66 0.34429
Target:  5'- gGCCCgGCCGGGggCGuGUcgaGGguGagGCCg -3'
miRNA:   3'- -CGGGgCGGCCCa-GCuCG---UCguCg-UGG- -5'
11433 3' -62.6 NC_003085.1 + 42817 0.69 0.196186
Target:  5'- uGUCuuGCaCGGGUCcGGCgcuGGCGGCGCg -3'
miRNA:   3'- -CGGggCG-GCCCAGcUCG---UCGUCGUGg -5'
11433 3' -62.6 NC_003085.1 + 42683 0.7 0.1788
Target:  5'- gGCCCgGUacucgucaagugucuCaGGcUUGAGCGGCGGCACCu -3'
miRNA:   3'- -CGGGgCG---------------GcCC-AGCUCGUCGUCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 42089 0.66 0.321102
Target:  5'- gGCgCCGUCGGccUCGuacuGgAGCGGCGCCc -3'
miRNA:   3'- -CGgGGCGGCCc-AGCu---CgUCGUCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 42008 0.68 0.246187
Target:  5'- uGCCCCGgCGGcGUCG-GCacGGacgagGGCGCCu -3'
miRNA:   3'- -CGGGGCgGCC-CAGCuCG--UCg----UCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 41105 0.66 0.328699
Target:  5'- aCCUgGaCUGGGUggaggcccaggcCGAGC-GCGGCACCc -3'
miRNA:   3'- cGGGgC-GGCCCA------------GCUCGuCGUCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 40969 0.66 0.321102
Target:  5'- gGCCCCGCCaGcGcUCGcaAGCGGCAaGgGCUg -3'
miRNA:   3'- -CGGGGCGGcC-C-AGC--UCGUCGU-CgUGG- -5'
11433 3' -62.6 NC_003085.1 + 40954 0.69 0.201271
Target:  5'- uGCgCCCGCUGGugcgcGUCGuacuGGCGGgcCAGCGCCu -3'
miRNA:   3'- -CG-GGGCGGCC-----CAGC----UCGUC--GUCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 38983 0.66 0.352283
Target:  5'- cGCCgCGCagcaGGUCGGcCAGCcgaggGGCGCCa -3'
miRNA:   3'- -CGGgGCGgc--CCAGCUcGUCG-----UCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 38142 0.73 0.109783
Target:  5'- cGCCCUGCUGGcGUUG-GUGGUGGCGCUc -3'
miRNA:   3'- -CGGGGCGGCC-CAGCuCGUCGUCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 38055 0.68 0.246187
Target:  5'- aGCCaCCGCgGcGGUgCGucagccGGCGGUAGCGCUc -3'
miRNA:   3'- -CGG-GGCGgC-CCA-GC------UCGUCGUCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 37387 0.69 0.206996
Target:  5'- cGCCCCGuagacgagaaucgccCCGGGguagcccgCGaAGCGgcgcacgaagucgcGCAGCACCg -3'
miRNA:   3'- -CGGGGC---------------GGCCCa-------GC-UCGU--------------CGUCGUGG- -5'
11433 3' -62.6 NC_003085.1 + 37130 0.66 0.34429
Target:  5'- cGUCaCGCCGGGcacggCGA-CGGCGgGCACCc -3'
miRNA:   3'- -CGGgGCGGCCCa----GCUcGUCGU-CGUGG- -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.