miRNA display CGI


Results 1 - 20 of 23 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
16417 5' -57.6 NC_004084.1 + 3594 0.66 0.62243
Target:  5'- cCUCgACCGUuucCGCGAauaucgcGGGGGC-GUCa -3'
miRNA:   3'- aGAGgUGGCA---GCGCUa------CCUCCGuCAG- -5'
16417 5' -57.6 NC_004084.1 + 4030 0.66 0.611638
Target:  5'- aUCgCCAUCaUCGUGAaGGGGGCGGa- -3'
miRNA:   3'- -AGaGGUGGcAGCGCUaCCUCCGUCag -5'
16417 5' -57.6 NC_004084.1 + 27565 0.66 0.600862
Target:  5'- cCUCCcggACgGUCGCca-GGAGGCAgcGUCg -3'
miRNA:   3'- aGAGG---UGgCAGCGcuaCCUCCGU--CAG- -5'
16417 5' -57.6 NC_004084.1 + 23574 0.66 0.583679
Target:  5'- cUCcCCGCUGucgucgagagccagaUCGCGAUGGAcGCGGUg -3'
miRNA:   3'- -AGaGGUGGC---------------AGCGCUACCUcCGUCAg -5'
16417 5' -57.6 NC_004084.1 + 26888 0.67 0.562344
Target:  5'- cCUCCGaggcgaucgcggcauCCaUCGCGAuagUGGAGGCGG-Cg -3'
miRNA:   3'- aGAGGU---------------GGcAGCGCU---ACCUCCGUCaG- -5'
16417 5' -57.6 NC_004084.1 + 53190 0.67 0.537031
Target:  5'- gUUCguCCGUCGCGAcUGGAaGCAG-Ca -3'
miRNA:   3'- aGAGguGGCAGCGCU-ACCUcCGUCaG- -5'
16417 5' -57.6 NC_004084.1 + 7800 0.67 0.537031
Target:  5'- gCUCUgACCGUCGaCGAccucgacgcUGGAGGCAc-- -3'
miRNA:   3'- aGAGG-UGGCAGC-GCU---------ACCUCCGUcag -5'
16417 5' -57.6 NC_004084.1 + 15866 0.67 0.516244
Target:  5'- -aUCCAUCGUCG-GGUGGA--CAGUCg -3'
miRNA:   3'- agAGGUGGCAGCgCUACCUccGUCAG- -5'
16417 5' -57.6 NC_004084.1 + 23860 0.68 0.505972
Target:  5'- cCagCGCCcUCGCGAUGGAcGCGGUg -3'
miRNA:   3'- aGagGUGGcAGCGCUACCUcCGUCAg -5'
16417 5' -57.6 NC_004084.1 + 31332 0.68 0.495788
Target:  5'- aUCgUCCGagaCGUCGCGAU---GGCGGUCg -3'
miRNA:   3'- -AG-AGGUg--GCAGCGCUAccuCCGUCAG- -5'
16417 5' -57.6 NC_004084.1 + 31516 0.68 0.465819
Target:  5'- cCUCCACUaUCGCGAUGGAugccGCGaUCg -3'
miRNA:   3'- aGAGGUGGcAGCGCUACCUc---CGUcAG- -5'
16417 5' -57.6 NC_004084.1 + 32427 0.7 0.382089
Target:  5'- gCUCgCACuCGUCGCGAacGAGGUcgaGGUCg -3'
miRNA:   3'- aGAG-GUG-GCAGCGCUacCUCCG---UCAG- -5'
16417 5' -57.6 NC_004084.1 + 54250 0.71 0.340108
Target:  5'- aUCagCGCCGUCgGCGAgguuGAGGUAGUCc -3'
miRNA:   3'- -AGagGUGGCAG-CGCUac--CUCCGUCAG- -5'
16417 5' -57.6 NC_004084.1 + 28646 0.71 0.340108
Target:  5'- --gCCGacCCGUCGCGAUGcAGGaCGGUCa -3'
miRNA:   3'- agaGGU--GGCAGCGCUACcUCC-GUCAG- -5'
16417 5' -57.6 NC_004084.1 + 21291 0.71 0.339303
Target:  5'- cUUCCGCCG-CGUGAUGGAaaccagcGGC-GUCa -3'
miRNA:   3'- aGAGGUGGCaGCGCUACCU-------CCGuCAG- -5'
16417 5' -57.6 NC_004084.1 + 28263 0.72 0.30157
Target:  5'- -gUUCACCGUCGCGGcuucgacucgUGGAcGGgAGUCu -3'
miRNA:   3'- agAGGUGGCAGCGCU----------ACCU-CCgUCAG- -5'
16417 5' -57.6 NC_004084.1 + 2710 0.72 0.28011
Target:  5'- cCUCgAUC-UCGaGGUGGAGGCGGUCg -3'
miRNA:   3'- aGAGgUGGcAGCgCUACCUCCGUCAG- -5'
16417 5' -57.6 NC_004084.1 + 2251 0.74 0.223015
Target:  5'- aUCUCCucggucuuGCCGUUGuUGA-GGAGGUAGUCg -3'
miRNA:   3'- -AGAGG--------UGGCAGC-GCUaCCUCCGUCAG- -5'
16417 5' -57.6 NC_004084.1 + 31903 0.75 0.195778
Target:  5'- cCUCCACCcUCGCGAUGGAuGCGaUCu -3'
miRNA:   3'- aGAGGUGGcAGCGCUACCUcCGUcAG- -5'
16417 5' -57.6 NC_004084.1 + 42016 0.77 0.138212
Target:  5'- cUCgagUgGCCGUCGCGAgcGAGGCGGUCg -3'
miRNA:   3'- -AGa--GgUGGCAGCGCUacCUCCGUCAG- -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.