miRNA display CGI


Results 1 - 19 of 19 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
12529 5' -55.6 NC_003345.1 + 59760 0.66 0.828316
Target:  5'- gCGGuGGuuuGGUUG-ACUCagguuaucAGUCAGCCg -3'
miRNA:   3'- -GCC-CCu--CCAGCuUGAGgu------UCAGUCGG- -5'
12529 5' -55.6 NC_003345.1 + 24598 0.66 0.810451
Target:  5'- -cGGGAGGUCGccCUCgAAGUacggaacGCCa -3'
miRNA:   3'- gcCCCUCCAGCuuGAGgUUCAgu-----CGG- -5'
12529 5' -55.6 NC_003345.1 + 55508 0.66 0.809538
Target:  5'- aCGGGGGaGUCGAagucucggaugGCUCCGGucuaaacGUCGGUg -3'
miRNA:   3'- -GCCCCUcCAGCU-----------UGAGGUU-------CAGUCGg -5'
12529 5' -55.6 NC_003345.1 + 61719 0.66 0.801251
Target:  5'- uCGGGGAGaGUCuGACUUCuaccUCaAGCCg -3'
miRNA:   3'- -GCCCCUC-CAGcUUGAGGuuc-AG-UCGG- -5'
12529 5' -55.6 NC_003345.1 + 4608 0.66 0.800322
Target:  5'- uCGGuGGAGGUaau-CUCCGaccuucaauucgaGGUCGGCUu -3'
miRNA:   3'- -GCC-CCUCCAgcuuGAGGU-------------UCAGUCGG- -5'
12529 5' -55.6 NC_003345.1 + 74295 0.67 0.762899
Target:  5'- aGGGGcaGUCGAACUCgCGuaUCAGCg -3'
miRNA:   3'- gCCCCucCAGCUUGAG-GUucAGUCGg -5'
12529 5' -55.6 NC_003345.1 + 32151 0.67 0.762899
Target:  5'- uGGGaGAGGUCGcgucguucuuCUCgAAGUCgugggaAGCCg -3'
miRNA:   3'- gCCC-CUCCAGCuu--------GAGgUUCAG------UCGG- -5'
12529 5' -55.6 NC_003345.1 + 15436 0.67 0.752972
Target:  5'- uCGGGGucGUCGuuCUCCGGG-UAGaCCu -3'
miRNA:   3'- -GCCCCucCAGCuuGAGGUUCaGUC-GG- -5'
12529 5' -55.6 NC_003345.1 + 3013 0.68 0.712219
Target:  5'- cCGGGGA-GUCGAACcCCGG---AGCCg -3'
miRNA:   3'- -GCCCCUcCAGCUUGaGGUUcagUCGG- -5'
12529 5' -55.6 NC_003345.1 + 34167 0.68 0.69136
Target:  5'- cCGGGGAuuccgaugaGGUCGAAgUCgGGGUUAGa- -3'
miRNA:   3'- -GCCCCU---------CCAGCUUgAGgUUCAGUCgg -5'
12529 5' -55.6 NC_003345.1 + 67686 0.69 0.617185
Target:  5'- aCGGGGuGGUCGcGCUuUCGAG--GGCCa -3'
miRNA:   3'- -GCCCCuCCAGCuUGA-GGUUCagUCGG- -5'
12529 5' -55.6 NC_003345.1 + 20232 0.69 0.610811
Target:  5'- cCGGGGAcggacuugccacggaGGUCGAACac---GUCGGCCa -3'
miRNA:   3'- -GCCCCU---------------CCAGCUUGagguuCAGUCGG- -5'
12529 5' -55.6 NC_003345.1 + 71556 0.7 0.585397
Target:  5'- uGGGGAGGUC-AAgUCCcgaGAGUCGGg- -3'
miRNA:   3'- gCCCCUCCAGcUUgAGG---UUCAGUCgg -5'
12529 5' -55.6 NC_003345.1 + 65800 0.72 0.482832
Target:  5'- aCGGuGGGGGUgaGAGCUUCAAcaucGUCGGUCa -3'
miRNA:   3'- -GCC-CCUCCAg-CUUGAGGUU----CAGUCGG- -5'
12529 5' -55.6 NC_003345.1 + 77008 0.73 0.416424
Target:  5'- uCGGGGAgcuGGUCGAGCcaaUCCGGGUCGa-- -3'
miRNA:   3'- -GCCCCU---CCAGCUUG---AGGUUCAGUcgg -5'
12529 5' -55.6 NC_003345.1 + 36351 0.74 0.355904
Target:  5'- uGGGGucguaGGcGUCGuagGACUUCAAGUUAGCCa -3'
miRNA:   3'- gCCCC-----UC-CAGC---UUGAGGUUCAGUCGG- -5'
12529 5' -55.6 NC_003345.1 + 61182 0.76 0.267252
Target:  5'- gCGGcGGAGGUCGcACUCCAAacUCGGCa -3'
miRNA:   3'- -GCC-CCUCCAGCuUGAGGUUc-AGUCGg -5'
12529 5' -55.6 NC_003345.1 + 65927 0.84 0.085797
Target:  5'- uCGGGGAGGUCGGAUUCCcguagcGGGUC-GCCu -3'
miRNA:   3'- -GCCCCUCCAGCUUGAGG------UUCAGuCGG- -5'
12529 5' -55.6 NC_003345.1 + 20130 1.12 0.000931
Target:  5'- uCGGGGAGGUCGAACUCCAAGUCAGCCg -3'
miRNA:   3'- -GCCCCUCCAGCUUGAGGUUCAGUCGG- -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.