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
1397 3' -51.7 NC_001335.1 + 47126 0.66 0.875372
Target:  5'- aCCGUAAcCGCAAGCGaGAGaugaagcGCCccgGCAa -3'
miRNA:   3'- -GGCAUUcGUGUUCGC-CUU-------CGGaa-CGU- -5'
1397 3' -51.7 NC_001335.1 + 40193 0.66 0.868021
Target:  5'- cCUGcuGGCGC-AGUGGGuuGGUCUUGCGg -3'
miRNA:   3'- -GGCauUCGUGuUCGCCU--UCGGAACGU- -5'
1397 3' -51.7 NC_001335.1 + 50118 0.66 0.868021
Target:  5'- uUGUGcAGCAggacCGAGCuGAcAGCCUUGCGa -3'
miRNA:   3'- gGCAU-UCGU----GUUCGcCU-UCGGAACGU- -5'
1397 3' -51.7 NC_001335.1 + 492 0.66 0.868021
Target:  5'- uCCaGUGGGCACucGAGCGaguGCCaUGCAc -3'
miRNA:   3'- -GG-CAUUCGUG--UUCGCcuuCGGaACGU- -5'
1397 3' -51.7 NC_001335.1 + 36852 0.66 0.868021
Target:  5'- uCCGagcAGUGCAAGCGGcgguuccugGAGCCgcUGCGc -3'
miRNA:   3'- -GGCau-UCGUGUUCGCC---------UUCGGa-ACGU- -5'
1397 3' -51.7 NC_001335.1 + 30344 0.66 0.850929
Target:  5'- -gGUGAGCcCGGaugaaguuGCGGAAGCCUUcCAg -3'
miRNA:   3'- ggCAUUCGuGUU--------CGCCUUCGGAAcGU- -5'
1397 3' -51.7 NC_001335.1 + 17134 0.67 0.832853
Target:  5'- aCGgcAGCAUcGGCuGGAgAGCCU-GCAg -3'
miRNA:   3'- gGCauUCGUGuUCG-CCU-UCGGAaCGU- -5'
1397 3' -51.7 NC_001335.1 + 7685 0.67 0.832853
Target:  5'- aUCGgcAGC-CAGGUGGAGucGCCUcggGCGa -3'
miRNA:   3'- -GGCauUCGuGUUCGCCUU--CGGAa--CGU- -5'
1397 3' -51.7 NC_001335.1 + 13183 0.67 0.821566
Target:  5'- uCCGauGGCaACAAGCGGAccaGGCCgucgaauaccgGCAu -3'
miRNA:   3'- -GGCauUCG-UGUUCGCCU---UCGGaa---------CGU- -5'
1397 3' -51.7 NC_001335.1 + 9478 0.67 0.81387
Target:  5'- uUCGgcGGCGCAugGGaaGAGGCCaUGCGg -3'
miRNA:   3'- -GGCauUCGUGU--UCgcCUUCGGaACGU- -5'
1397 3' -51.7 NC_001335.1 + 19511 0.68 0.783888
Target:  5'- aCCaGgccGCGCAGGCGGAAGUCgccaucgcGCAg -3'
miRNA:   3'- -GG-CauuCGUGUUCGCCUUCGGaa------CGU- -5'
1397 3' -51.7 NC_001335.1 + 23855 0.68 0.773539
Target:  5'- gCUGgaGGCGC-AGCGGGAGCUggcucUGUAu -3'
miRNA:   3'- -GGCauUCGUGuUCGCCUUCGGa----ACGU- -5'
1397 3' -51.7 NC_001335.1 + 31718 0.68 0.763034
Target:  5'- uCCGUGAGCugGcAGgGGAAuuGCUUcgGCAg -3'
miRNA:   3'- -GGCAUUCGugU-UCgCCUU--CGGAa-CGU- -5'
1397 3' -51.7 NC_001335.1 + 29715 0.68 0.752384
Target:  5'- aCCGcGAGUACuccacaucGAGCaGGAAGCCcUGCc -3'
miRNA:   3'- -GGCaUUCGUG--------UUCG-CCUUCGGaACGu -5'
1397 3' -51.7 NC_001335.1 + 25768 0.69 0.730702
Target:  5'- uCUGUucGCGCAGGCGGggGgCUc--- -3'
miRNA:   3'- -GGCAuuCGUGUUCGCCuuCgGAacgu -5'
1397 3' -51.7 NC_001335.1 + 39140 0.69 0.697416
Target:  5'- gCGUcucGCGUGAGCGGGAGCCccugUGCGa -3'
miRNA:   3'- gGCAuu-CGUGUUCGCCUUCGGa---ACGU- -5'
1397 3' -51.7 NC_001335.1 + 45749 0.74 0.4234
Target:  5'- cUCGUGAGCGCcAGCGGAaccagaguuGGaCCUUGUc -3'
miRNA:   3'- -GGCAUUCGUGuUCGCCU---------UC-GGAACGu -5'
1397 3' -51.7 NC_001335.1 + 42784 0.75 0.375952
Target:  5'- -gGUuuGCcCAAGCGGAGGCCgUGCGu -3'
miRNA:   3'- ggCAuuCGuGUUCGCCUUCGGaACGU- -5'
1397 3' -51.7 NC_001335.1 + 39258 1.12 0.001262
Target:  5'- aCCGUAAGCACAAGCGGAAGCCUUGCAa -3'
miRNA:   3'- -GGCAUUCGUGUUCGCCUUCGGAACGU- -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.