miRNA display CGI


Results 1 - 20 of 45 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
12190 3' -55.4 NC_003309.1 + 45564 0.66 0.722906
Target:  5'- aGCAuGCCGucGCAGguucugcguccGCGAgaaggucguauUGACGGCCg -3'
miRNA:   3'- -CGUuCGGUucCGUU-----------CGCU-----------GCUGCCGG- -5'
12190 3' -55.4 NC_003309.1 + 47416 0.66 0.722906
Target:  5'- cGCAccAGUCGAGcCAcGCGuCGACGGgCa -3'
miRNA:   3'- -CGU--UCGGUUCcGUuCGCuGCUGCCgG- -5'
12190 3' -55.4 NC_003309.1 + 45878 0.66 0.690596
Target:  5'- cGCGcGUUGAu-CAcGCGGCGACGGCCg -3'
miRNA:   3'- -CGUuCGGUUccGUuCGCUGCUGCCGG- -5'
12190 3' -55.4 NC_003309.1 + 41755 0.66 0.673138
Target:  5'- cGCcgauuGGCCcaugcgcugauaucaGAGGCGugAGCGcCGAUGGCUu -3'
miRNA:   3'- -CGu----UCGG---------------UUCCGU--UCGCuGCUGCCGG- -5'
12190 3' -55.4 NC_003309.1 + 15586 0.66 0.668755
Target:  5'- uGCuGGCCAccgaAGuCGAGCGGCGACGagaGCg -3'
miRNA:   3'- -CGuUCGGU----UCcGUUCGCUGCUGC---CGg -5'
12190 3' -55.4 NC_003309.1 + 5142 0.66 0.668755
Target:  5'- cGCGcGCCGccGCGAGCGcACGuaccauGCGcGCCa -3'
miRNA:   3'- -CGUuCGGUucCGUUCGC-UGC------UGC-CGG- -5'
12190 3' -55.4 NC_003309.1 + 37591 0.66 0.668755
Target:  5'- uGCAAcGCUAcGGCGA-CGACcGCGGCg -3'
miRNA:   3'- -CGUU-CGGUuCCGUUcGCUGcUGCCGg -5'
12190 3' -55.4 NC_003309.1 + 28507 0.67 0.643473
Target:  5'- ---cGCCGgaaucAGGC-AGCGGCGAcccgcgcgccacgcCGGCCc -3'
miRNA:   3'- cguuCGGU-----UCCGuUCGCUGCU--------------GCCGG- -5'
12190 3' -55.4 NC_003309.1 + 32060 0.67 0.640169
Target:  5'- ---cGCCGAGGCGcGCaaugcacgcuucgcuGGCGGCucGGCCg -3'
miRNA:   3'- cguuCGGUUCCGUuCG---------------CUGCUG--CCGG- -5'
12190 3' -55.4 NC_003309.1 + 27282 0.67 0.635762
Target:  5'- uCGAGCCuuuGGGCAAacGCGGCGuuuugagaaucGCaGCCu -3'
miRNA:   3'- cGUUCGGu--UCCGUU--CGCUGC-----------UGcCGG- -5'
12190 3' -55.4 NC_003309.1 + 11982 0.67 0.635762
Target:  5'- cGCGgcAGCCGcGGCGcGCGccGCGuCGGCg -3'
miRNA:   3'- -CGU--UCGGUuCCGUuCGC--UGCuGCCGg -5'
12190 3' -55.4 NC_003309.1 + 10862 0.67 0.624744
Target:  5'- cGCGcGCCugcguGGCAAGCG-CGAcaucacgcuCGGCUc -3'
miRNA:   3'- -CGUuCGGuu---CCGUUCGCuGCU---------GCCGG- -5'
12190 3' -55.4 NC_003309.1 + 31478 0.67 0.624744
Target:  5'- ---cGCCGGcGGCGaaAGCGGCcACGGCg -3'
miRNA:   3'- cguuCGGUU-CCGU--UCGCUGcUGCCGg -5'
12190 3' -55.4 NC_003309.1 + 13639 0.67 0.613733
Target:  5'- -aGAGuCCGcGGGCGcgaAGCGGCGGCGuCCa -3'
miRNA:   3'- cgUUC-GGU-UCCGU---UCGCUGCUGCcGG- -5'
12190 3' -55.4 NC_003309.1 + 32925 0.67 0.613733
Target:  5'- gGCAAGCaaCAAcGGCuauGCGgccggacugcGCGACGGCa -3'
miRNA:   3'- -CGUUCG--GUU-CCGuu-CGC----------UGCUGCCGg -5'
12190 3' -55.4 NC_003309.1 + 22353 0.67 0.612632
Target:  5'- gGCAAGCCGaugugcgccgaucAGGUgcucgacgcAAGCGcCGGCcGCCa -3'
miRNA:   3'- -CGUUCGGU-------------UCCG---------UUCGCuGCUGcCGG- -5'
12190 3' -55.4 NC_003309.1 + 4680 0.68 0.602737
Target:  5'- cGCGAGCCGAaacgcuacGGCGcGCauucgcgccuuGACGAuCGGCUc -3'
miRNA:   3'- -CGUUCGGUU--------CCGUuCG-----------CUGCU-GCCGG- -5'
12190 3' -55.4 NC_003309.1 + 18316 0.68 0.602737
Target:  5'- gGCAuaucGGCCGAcGCGA-CGACGGagcCGGCCc -3'
miRNA:   3'- -CGU----UCGGUUcCGUUcGCUGCU---GCCGG- -5'
12190 3' -55.4 NC_003309.1 + 32833 0.68 0.602737
Target:  5'- uGCGGGCCGAaguccugugcGGCAA-CGACGAgucgcuggagaUGGCUg -3'
miRNA:   3'- -CGUUCGGUU----------CCGUUcGCUGCU-----------GCCGG- -5'
12190 3' -55.4 NC_003309.1 + 12983 0.68 0.602737
Target:  5'- -aAAGCCAuAGGCAuuCGAgcCGACaGCCg -3'
miRNA:   3'- cgUUCGGU-UCCGUucGCU--GCUGcCGG- -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.