miRNA display CGI


Results 1 - 20 of 21 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
13011 5' -52.3 NC_003390.1 + 6885 0.66 0.792751
Target:  5'- gCAGAGaCCGGCuUCAUGaagcaucagGAGGCCg- -3'
miRNA:   3'- aGUUUC-GGUCGuAGUACg--------UUCCGGag -5'
13011 5' -52.3 NC_003390.1 + 6932 0.66 0.792751
Target:  5'- aCAGGGCCcguGCAg---GCAAGGCUa- -3'
miRNA:   3'- aGUUUCGGu--CGUaguaCGUUCCGGag -5'
13011 5' -52.3 NC_003390.1 + 18257 0.66 0.792751
Target:  5'- ----cGCCaAGgGUgGUGCGAuGGCCUCc -3'
miRNA:   3'- aguuuCGG-UCgUAgUACGUU-CCGGAG- -5'
13011 5' -52.3 NC_003390.1 + 36252 0.66 0.791718
Target:  5'- cUCAuAAGCCGGauaagGUCcuugggauaagccGUGCAAGGCCa- -3'
miRNA:   3'- -AGU-UUCGGUCg----UAG-------------UACGUUCCGGag -5'
13011 5' -52.3 NC_003390.1 + 5143 0.66 0.791718
Target:  5'- aUCAGAGCCuucuguuGGUugaugaggCGUGCGAGGUCa- -3'
miRNA:   3'- -AGUUUCGG-------UCGua------GUACGUUCCGGag -5'
13011 5' -52.3 NC_003390.1 + 15141 0.66 0.781294
Target:  5'- cUCAAGGCCacuGGCGUCAcuaccaaccUGCAggugguuaucacuGGGCUUg -3'
miRNA:   3'- -AGUUUCGG---UCGUAGU---------ACGU-------------UCCGGAg -5'
13011 5' -52.3 NC_003390.1 + 28400 0.66 0.761024
Target:  5'- gCAGAGCCuucgaccauAGC-UUGUGagAGGGCCUCg -3'
miRNA:   3'- aGUUUCGG---------UCGuAGUACg-UUCCGGAG- -5'
13011 5' -52.3 NC_003390.1 + 25958 0.66 0.750136
Target:  5'- -aGAAGCCAGCAcgCGaGCAAuGCgCUCg -3'
miRNA:   3'- agUUUCGGUCGUa-GUaCGUUcCG-GAG- -5'
13011 5' -52.3 NC_003390.1 + 5709 0.67 0.739113
Target:  5'- cUCAAAGUCAGCAUUgcGgAAGauGCCUUc -3'
miRNA:   3'- -AGUUUCGGUCGUAGuaCgUUC--CGGAG- -5'
13011 5' -52.3 NC_003390.1 + 44313 0.67 0.72797
Target:  5'- aCGAAGCCAGCAcCA-GCAA--CCUCc -3'
miRNA:   3'- aGUUUCGGUCGUaGUaCGUUccGGAG- -5'
13011 5' -52.3 NC_003390.1 + 44059 0.68 0.67092
Target:  5'- cUCAAAGCCuGCAUCcacCAGGGCg-- -3'
miRNA:   3'- -AGUUUCGGuCGUAGuacGUUCCGgag -5'
13011 5' -52.3 NC_003390.1 + 38342 0.68 0.647724
Target:  5'- cUCAAGGCCuGCAggGUGagcaggggcuaCAAGGcCCUCa -3'
miRNA:   3'- -AGUUUCGGuCGUagUAC-----------GUUCC-GGAG- -5'
13011 5' -52.3 NC_003390.1 + 38302 0.68 0.636095
Target:  5'- -gGGGGCCAGUAUCAccuuggagaccuUG-AGGGCCUUc -3'
miRNA:   3'- agUUUCGGUCGUAGU------------ACgUUCCGGAG- -5'
13011 5' -52.3 NC_003390.1 + 3724 0.68 0.636095
Target:  5'- gCGAGGCCuuGCAUgAUGCu-GGCUUUg -3'
miRNA:   3'- aGUUUCGGu-CGUAgUACGuuCCGGAG- -5'
13011 5' -52.3 NC_003390.1 + 2471 0.69 0.578118
Target:  5'- aCAAGGCUGGCAUCcaGUGgAAGGgCUg -3'
miRNA:   3'- aGUUUCGGUCGUAG--UACgUUCCgGAg -5'
13011 5' -52.3 NC_003390.1 + 15302 0.7 0.532562
Target:  5'- -aAGGGCCAagaaauacGUggaaagAUCAUGCAAGGCCUa -3'
miRNA:   3'- agUUUCGGU--------CG------UAGUACGUUCCGGAg -5'
13011 5' -52.3 NC_003390.1 + 225 0.72 0.415538
Target:  5'- aUCAGgcAGCgCGGCGUCccuucUGCAGGGCCa- -3'
miRNA:   3'- -AGUU--UCG-GUCGUAGu----ACGUUCCGGag -5'
13011 5' -52.3 NC_003390.1 + 30369 0.72 0.415538
Target:  5'- aUCAGgcAGCgCGGCGUCccuucUGCAGGGCCa- -3'
miRNA:   3'- -AGUU--UCG-GUCGUAGu----ACGUUCCGGag -5'
13011 5' -52.3 NC_003390.1 + 47431 0.75 0.291746
Target:  5'- aCGGAGCCAgGCGUCAcGCucuGGGCCa- -3'
miRNA:   3'- aGUUUCGGU-CGUAGUaCGu--UCCGGag -5'
13011 5' -52.3 NC_003390.1 + 1850 0.76 0.2551
Target:  5'- ---cAGCCguugcaguauugAGCAaCGUGCAGGGCCUCg -3'
miRNA:   3'- aguuUCGG------------UCGUaGUACGUUCCGGAG- -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.