miRNA display CGI


Results 1 - 16 of 16 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
11538 5' -59.3 NC_003085.1 + 30222 0.66 0.518707
Target:  5'- gGGGUgacguccugcGUGGgcUGCuGggGCCGGCgGCGg -3'
miRNA:   3'- -CCCA----------CACC--ACGcCaaUGGCCGgCGCg -5'
11538 5' -59.3 NC_003085.1 + 31875 0.66 0.518707
Target:  5'- cGGGUGUGuccGUcGCGaGcgGCCGGgCCGCu- -3'
miRNA:   3'- -CCCACAC---CA-CGC-CaaUGGCC-GGCGcg -5'
11538 5' -59.3 NC_003085.1 + 41391 0.66 0.508521
Target:  5'- ---gGUGGUG-GGUga-CGGCCGUGUu -3'
miRNA:   3'- cccaCACCACgCCAaugGCCGGCGCG- -5'
11538 5' -59.3 NC_003085.1 + 48780 0.66 0.468681
Target:  5'- aGGUGcUGGUggGCGaGUccGCCacGCCGCGCa -3'
miRNA:   3'- cCCAC-ACCA--CGC-CAa-UGGc-CGGCGCG- -5'
11538 5' -59.3 NC_003085.1 + 22193 0.66 0.468681
Target:  5'- aGGUGcaggccgaGGUGCaGGgcgACCuGCUGCGCa -3'
miRNA:   3'- cCCACa-------CCACG-CCaa-UGGcCGGCGCG- -5'
11538 5' -59.3 NC_003085.1 + 24942 0.66 0.467705
Target:  5'- uGGGcgccgcUGcaGGUGaGGUUGCCGGCCcaggcgagaaucuGCGCc -3'
miRNA:   3'- -CCC------ACa-CCACgCCAAUGGCCGG-------------CGCG- -5'
11538 5' -59.3 NC_003085.1 + 43761 0.67 0.44366
Target:  5'- cGGUGgugGGcGCGGgcuuggacucaacACCGGCCaGCGUc -3'
miRNA:   3'- cCCACa--CCaCGCCaa-----------UGGCCGG-CGCG- -5'
11538 5' -59.3 NC_003085.1 + 20964 0.67 0.41211
Target:  5'- -----aGGUGCGGUgGCUGGCCuucCGCa -3'
miRNA:   3'- cccacaCCACGCCAaUGGCCGGc--GCG- -5'
11538 5' -59.3 NC_003085.1 + 884 0.68 0.388067
Target:  5'- cGGUGUGGaugacggacgucaUGCGGUUcuccuccacgaagaGCgaguccuggagcguCGGCCGCGUc -3'
miRNA:   3'- cCCACACC-------------ACGCCAA--------------UG--------------GCCGGCGCG- -5'
11538 5' -59.3 NC_003085.1 + 40474 0.68 0.385453
Target:  5'- ---gGUGGUGaggaguuGGaUGCCGGCCaGCGCc -3'
miRNA:   3'- cccaCACCACg------CCaAUGGCCGG-CGCG- -5'
11538 5' -59.3 NC_003085.1 + 28282 0.69 0.312596
Target:  5'- -cGUGUGGaGCGGcgagUACCaGGCCuCGCa -3'
miRNA:   3'- ccCACACCaCGCCa---AUGG-CCGGcGCG- -5'
11538 5' -59.3 NC_003085.1 + 9098 0.7 0.305178
Target:  5'- cGGUGUGGUGUGGaagaGCCGGgCGg-- -3'
miRNA:   3'- cCCACACCACGCCaa--UGGCCgGCgcg -5'
11538 5' -59.3 NC_003085.1 + 28459 0.7 0.305177
Target:  5'- aGGGcGUGGauugagGCGcucACCGGCUGCGUg -3'
miRNA:   3'- -CCCaCACCa-----CGCcaaUGGCCGGCGCG- -5'
11538 5' -59.3 NC_003085.1 + 6775 0.7 0.276856
Target:  5'- uGGGUGcGGUGCaGGg---CGGCCGCa- -3'
miRNA:   3'- -CCCACaCCACG-CCaaugGCCGGCGcg -5'
11538 5' -59.3 NC_003085.1 + 32140 0.72 0.234771
Target:  5'- gGGGgcggcugGUGGcGCGGUggguuacggcgucgGCCaGGCUGCGCc -3'
miRNA:   3'- -CCCa------CACCaCGCCAa-------------UGG-CCGGCGCG- -5'
11538 5' -59.3 NC_003085.1 + 11515 1.14 0.00018
Target:  5'- cGGGUGUGGUGCGGUUACCGGCCGCGCg -3'
miRNA:   3'- -CCCACACCACGCCAAUGGCCGGCGCG- -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.