miRNA display CGI


Results 1 - 20 of 33 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
7199 3' -60.7 NC_001900.1 + 7166 0.66 0.430105
Target:  5'- -gCC-AGCGGCuucauCGGUGGCCGggacuCCGUg -3'
miRNA:   3'- caGGuUCGCCG-----GCCACUGGCac---GGCG- -5'
7199 3' -60.7 NC_001900.1 + 4285 0.66 0.420855
Target:  5'- -gCCAAGCGGgCGGUuccccaGAgCGUGgggagcccCCGCa -3'
miRNA:   3'- caGGUUCGCCgGCCA------CUgGCAC--------GGCG- -5'
7199 3' -60.7 NC_001900.1 + 40128 0.66 0.410819
Target:  5'- uUCCuggccAGCaGCCGcGUccagcagGACCGcUGCCGCg -3'
miRNA:   3'- cAGGu----UCGcCGGC-CA-------CUGGC-ACGGCG- -5'
7199 3' -60.7 NC_001900.1 + 5004 0.66 0.402719
Target:  5'- cUCCAgcacGGCGGCgGG-GGCCGguacUCGCa -3'
miRNA:   3'- cAGGU----UCGCCGgCCaCUGGCac--GGCG- -5'
7199 3' -60.7 NC_001900.1 + 27448 0.66 0.402719
Target:  5'- cGUUCGAcGCGGaucagcCUGG-GGCCGaGCCGCa -3'
miRNA:   3'- -CAGGUU-CGCC------GGCCaCUGGCaCGGCG- -5'
7199 3' -60.7 NC_001900.1 + 48541 0.66 0.402719
Target:  5'- uGUCCGGGUGGCUguaaaGGgcacguagGGCaCGUGUgGCa -3'
miRNA:   3'- -CAGGUUCGCCGG-----CCa-------CUG-GCACGgCG- -5'
7199 3' -60.7 NC_001900.1 + 14166 0.66 0.402719
Target:  5'- cGUCCGGGCGGCgGGUcgcaagcuGAagaCGUucgGCgGCa -3'
miRNA:   3'- -CAGGUUCGCCGgCCA--------CUg--GCA---CGgCG- -5'
7199 3' -60.7 NC_001900.1 + 17594 0.66 0.388572
Target:  5'- cGUCCGGGggaucuaccacugaUGGCCGaucggauccagguaGUGAUCGcgcUGCCGCg -3'
miRNA:   3'- -CAGGUUC--------------GCCGGC--------------CACUGGC---ACGGCG- -5'
7199 3' -60.7 NC_001900.1 + 48537 0.66 0.385956
Target:  5'- uUCCAGGCcGCgaGGuUGGCCGgaacguagguugucgGCCGCa -3'
miRNA:   3'- cAGGUUCGcCGg-CC-ACUGGCa--------------CGGCG- -5'
7199 3' -60.7 NC_001900.1 + 5956 0.66 0.385087
Target:  5'- cUCUggGCuGGCUGcUGaACCGgccagGCCGCa -3'
miRNA:   3'- cAGGuuCG-CCGGCcAC-UGGCa----CGGCG- -5'
7199 3' -60.7 NC_001900.1 + 26883 0.67 0.376464
Target:  5'- gGUCgCAA-CGGCCGGa-ACCGUcGCCGUc -3'
miRNA:   3'- -CAG-GUUcGCCGGCCacUGGCA-CGGCG- -5'
7199 3' -60.7 NC_001900.1 + 39274 0.67 0.375609
Target:  5'- gGUCCGguucggaAGCGGgaccaCCGG-GACCGcGCCGa -3'
miRNA:   3'- -CAGGU-------UCGCC-----GGCCaCUGGCaCGGCg -5'
7199 3' -60.7 NC_001900.1 + 42850 0.67 0.367973
Target:  5'- -cCCAGGauGCCGGgGACgagaGUGCCGa -3'
miRNA:   3'- caGGUUCgcCGGCCaCUGg---CACGGCg -5'
7199 3' -60.7 NC_001900.1 + 34785 0.67 0.367973
Target:  5'- gGUUCGAGCacGGCgGGUGacGCCGUcUCGCu -3'
miRNA:   3'- -CAGGUUCG--CCGgCCAC--UGGCAcGGCG- -5'
7199 3' -60.7 NC_001900.1 + 36585 0.67 0.359614
Target:  5'- --aCGGGCuGUCGGUG-CCGUgcaucGCCGCg -3'
miRNA:   3'- cagGUUCGcCGGCCACuGGCA-----CGGCG- -5'
7199 3' -60.7 NC_001900.1 + 34858 0.67 0.351389
Target:  5'- -gCCAgaGGCaccGGCCcagaGGCCGUGCCGCc -3'
miRNA:   3'- caGGU--UCG---CCGGcca-CUGGCACGGCG- -5'
7199 3' -60.7 NC_001900.1 + 2433 0.67 0.343298
Target:  5'- -gCCGGGUGGCUGuGUGAggucgacggccCCG-GCUGCg -3'
miRNA:   3'- caGGUUCGCCGGC-CACU-----------GGCaCGGCG- -5'
7199 3' -60.7 NC_001900.1 + 15447 0.67 0.335342
Target:  5'- -aUCGAGCuGCCGaucgaUGACCuUGCCGCa -3'
miRNA:   3'- caGGUUCGcCGGCc----ACUGGcACGGCG- -5'
7199 3' -60.7 NC_001900.1 + 46034 0.68 0.319837
Target:  5'- cUCCAGGCGGaCCcGUcGCCG-GUCGCc -3'
miRNA:   3'- cAGGUUCGCC-GGcCAcUGGCaCGGCG- -5'
7199 3' -60.7 NC_001900.1 + 6007 0.68 0.312288
Target:  5'- aUCgGcGCGaGCCGGUGACCu--CCGCg -3'
miRNA:   3'- cAGgUuCGC-CGGCCACUGGcacGGCG- -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.