miRNA display CGI


Results 1 - 20 of 59 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
11409 3' -54.4 NC_003085.1 + 37115 0.66 0.758438
Target:  5'- aGcGACACCauguggcGCGUGcccuugcccagguucGGGUCGGUGUGCg -3'
miRNA:   3'- gCuUUGUGG-------UGUAC---------------CUCGGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 1494 0.66 0.755319
Target:  5'- cCGu--CGCCAgccucGGCCGGUGCGCc -3'
miRNA:   3'- -GCuuuGUGGUguaccUCGGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 8660 0.66 0.755319
Target:  5'- cCGGGACG-CGCGUGGccuugggcGCCGGgGUGCc -3'
miRNA:   3'- -GCUUUGUgGUGUACCu-------CGGCCaCGCG- -5'
11409 3' -54.4 NC_003085.1 + 11407 0.66 0.755319
Target:  5'- gCGAcGCACCACcacauGUCGG-GCGCa -3'
miRNA:   3'- -GCUuUGUGGUGuaccuCGGCCaCGCG- -5'
11409 3' -54.4 NC_003085.1 + 30528 0.66 0.74484
Target:  5'- gGAGGCGgCGCGUGGAGCacaGcagGCGa -3'
miRNA:   3'- gCUUUGUgGUGUACCUCGg--Cca-CGCg -5'
11409 3' -54.4 NC_003085.1 + 43735 0.66 0.74484
Target:  5'- gCGGGACACCcgaGCcgGGuccGCCccgguGGUGgGCg -3'
miRNA:   3'- -GCUUUGUGG---UGuaCCu--CGG-----CCACgCG- -5'
11409 3' -54.4 NC_003085.1 + 29383 0.66 0.74484
Target:  5'- -aGAACGCCAUGgcGGAGuuGcUGCGCc -3'
miRNA:   3'- gcUUUGUGGUGUa-CCUCggCcACGCG- -5'
11409 3' -54.4 NC_003085.1 + 5958 0.66 0.74484
Target:  5'- cCGuccACGCCGgGcugcUGGAGgCGGUGgGCc -3'
miRNA:   3'- -GCuu-UGUGGUgU----ACCUCgGCCACgCG- -5'
11409 3' -54.4 NC_003085.1 + 2020 0.66 0.734245
Target:  5'- uCGAcGCGCaggACAUGGAGCaguuuGGcccGCGCg -3'
miRNA:   3'- -GCUuUGUGg--UGUACCUCGg----CCa--CGCG- -5'
11409 3' -54.4 NC_003085.1 + 14819 0.66 0.712752
Target:  5'- gCGAGGCcAUCGC--GGAG-UGGUGCGCc -3'
miRNA:   3'- -GCUUUG-UGGUGuaCCUCgGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 2398 0.66 0.712752
Target:  5'- cCGAcaugGACACCGCc--GAGCUGGUggugacgaagacGCGCu -3'
miRNA:   3'- -GCU----UUGUGGUGuacCUCGGCCA------------CGCG- -5'
11409 3' -54.4 NC_003085.1 + 20097 0.66 0.712752
Target:  5'- uGAcgUGCCGCAgguggcggggcUGGAGuCCGGccuagaggcgcUGCGCa -3'
miRNA:   3'- gCUuuGUGGUGU-----------ACCUC-GGCC-----------ACGCG- -5'
11409 3' -54.4 NC_003085.1 + 3649 0.66 0.711669
Target:  5'- aGGGACGCUGCAcugguggcgagguUGGAGgCaGGgacgGCGCg -3'
miRNA:   3'- gCUUUGUGGUGU-------------ACCUCgG-CCa---CGCG- -5'
11409 3' -54.4 NC_003085.1 + 18754 0.67 0.701879
Target:  5'- cCGAAGcCGCCGC-UGGAGC-GG-GCGa -3'
miRNA:   3'- -GCUUU-GUGGUGuACCUCGgCCaCGCg -5'
11409 3' -54.4 NC_003085.1 + 25895 0.67 0.701879
Target:  5'- gGAcGCGCUucucCAgaagauUGG-GCCGGUGCGUg -3'
miRNA:   3'- gCUuUGUGGu---GU------ACCuCGGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 5799 0.67 0.701879
Target:  5'- --cGugGCCuuCGUcGGAG-CGGUGCGCa -3'
miRNA:   3'- gcuUugUGGu-GUA-CCUCgGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 12467 0.67 0.690935
Target:  5'- uGggGCGCCAgCAgugcccugcUGGAGUCGaagcgGCGCc -3'
miRNA:   3'- gCuuUGUGGU-GU---------ACCUCGGCca---CGCG- -5'
11409 3' -54.4 NC_003085.1 + 45854 0.67 0.679934
Target:  5'- gCGgcGCAcguCCAgGcGGAGCCGGUGgGg -3'
miRNA:   3'- -GCuuUGU---GGUgUaCCUCGGCCACgCg -5'
11409 3' -54.4 NC_003085.1 + 47715 0.67 0.679934
Target:  5'- uCGAcuGCugCGCcUGcugacGGGCgCGGUGCGCg -3'
miRNA:   3'- -GCUu-UGugGUGuAC-----CUCG-GCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 5460 0.67 0.679934
Target:  5'- cCGGAugcaGCACCACGUGcugcccucguuGGGCgacaaggaacuCGGUGUGCu -3'
miRNA:   3'- -GCUU----UGUGGUGUAC-----------CUCG-----------GCCACGCG- -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.