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
1427 3' -62.7 NC_001335.1 + 1284 1.09 0.000166
Target:  5'- gCAGCAGCCCCAACACCCCGGUGCCCCc -3'
miRNA:   3'- -GUCGUCGGGGUUGUGGGGCCACGGGG- -5'
1427 3' -62.7 NC_001335.1 + 13854 0.78 0.047616
Target:  5'- gUAGCGGCCCCGAUcCUCCGGUcagacCCCCg -3'
miRNA:   3'- -GUCGUCGGGGUUGuGGGGCCAc----GGGG- -5'
1427 3' -62.7 NC_001335.1 + 7505 0.74 0.095164
Target:  5'- aAGC-GCCggCCGACACCCCGGU-CUCCg -3'
miRNA:   3'- gUCGuCGG--GGUUGUGGGGCCAcGGGG- -5'
1427 3' -62.7 NC_001335.1 + 6618 0.73 0.115082
Target:  5'- gGGUgAGCCUCAACAaccaccaCCCGGagcuUGCCCCg -3'
miRNA:   3'- gUCG-UCGGGGUUGUg------GGGCC----ACGGGG- -5'
1427 3' -62.7 NC_001335.1 + 17125 0.72 0.121452
Target:  5'- cCAGUcuGGCCCCGcACAUCCCGGcgcuggcgacgGCCCUc -3'
miRNA:   3'- -GUCG--UCGGGGU-UGUGGGGCCa----------CGGGG- -5'
1427 3' -62.7 NC_001335.1 + 23105 0.72 0.136637
Target:  5'- cCGGCGGUcagagcgaagaucgaUCCAGCACCCCaGGUGCagucgaCCa -3'
miRNA:   3'- -GUCGUCG---------------GGGUUGUGGGG-CCACGg-----GG- -5'
1427 3' -62.7 NC_001335.1 + 4752 0.71 0.148756
Target:  5'- gAGCAGUCaguCGACACCCuCGGguuguuggugaacGCCCCg -3'
miRNA:   3'- gUCGUCGGg--GUUGUGGG-GCCa------------CGGGG- -5'
1427 3' -62.7 NC_001335.1 + 1208 0.71 0.15848
Target:  5'- cCGGgGGCUCCAGCGCCUCugcgguugcGUGCUCCg -3'
miRNA:   3'- -GUCgUCGGGGUUGUGGGGc--------CACGGGG- -5'
1427 3' -62.7 NC_001335.1 + 31693 0.7 0.161422
Target:  5'- uCGGCAGCuccgacagaucgcaCCCAACACcuaccaggacauCCCGGaUGUCCCc -3'
miRNA:   3'- -GUCGUCG--------------GGGUUGUG------------GGGCC-ACGGGG- -5'
1427 3' -62.7 NC_001335.1 + 51749 0.7 0.175965
Target:  5'- uGGaCAGUCCCGGCAgCCCG-UGCCgCg -3'
miRNA:   3'- gUC-GUCGGGGUUGUgGGGCcACGGgG- -5'
1427 3' -62.7 NC_001335.1 + 16362 0.7 0.180597
Target:  5'- cCAGCAGggaCU--CACCCCGGUGUUCCa -3'
miRNA:   3'- -GUCGUCgg-GGuuGUGGGGCCACGGGG- -5'
1427 3' -62.7 NC_001335.1 + 15618 0.69 0.21071
Target:  5'- gUAGCGGUCCuCGGuccaGCCCCGGUacugcuGCCCa -3'
miRNA:   3'- -GUCGUCGGG-GUUg---UGGGGCCA------CGGGg -5'
1427 3' -62.7 NC_001335.1 + 29416 0.68 0.22733
Target:  5'- gCAGCGGUCCUcaGAguCCCUGGUGUCg- -3'
miRNA:   3'- -GUCGUCGGGG--UUguGGGGCCACGGgg -5'
1427 3' -62.7 NC_001335.1 + 23610 0.68 0.257486
Target:  5'- aGGUcuGGCCUgcguuCACCCCGGUGCUgaCCa -3'
miRNA:   3'- gUCG--UCGGGguu--GUGGGGCCACGG--GG- -5'
1427 3' -62.7 NC_001335.1 + 32980 0.68 0.257486
Target:  5'- gAGCAccGCCCCugccCAgCCCGaGccgGCCCCg -3'
miRNA:   3'- gUCGU--CGGGGuu--GUgGGGC-Ca--CGGGG- -5'
1427 3' -62.7 NC_001335.1 + 3443 0.67 0.26325
Target:  5'- uCAGCGuguacguGCCuCCGGuCGCCCCGGUGacauagaCCUg -3'
miRNA:   3'- -GUCGU-------CGG-GGUU-GUGGGGCCACg------GGG- -5'
1427 3' -62.7 NC_001335.1 + 51648 0.67 0.283905
Target:  5'- uGGCugucaAGCCCUAAuCGCaaaUUGGUGCCCUa -3'
miRNA:   3'- gUCG-----UCGGGGUU-GUGg--GGCCACGGGG- -5'
1427 3' -62.7 NC_001335.1 + 23400 0.67 0.290137
Target:  5'- gGGCuGCCgaAGCugucgaaGCUCCGGUGCCuCCg -3'
miRNA:   3'- gUCGuCGGggUUG-------UGGGGCCACGG-GG- -5'
1427 3' -62.7 NC_001335.1 + 15822 0.67 0.290836
Target:  5'- aGGuCAGCCCgAACACCaaGGaGUUCCg -3'
miRNA:   3'- gUC-GUCGGGgUUGUGGggCCaCGGGG- -5'
1427 3' -62.7 NC_001335.1 + 99 0.67 0.290836
Target:  5'- gGGCGcGUgaacuCCC-ACACCCCGGUGUaguuacauCCCg -3'
miRNA:   3'- gUCGU-CG-----GGGuUGUGGGGCCACG--------GGG- -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.