miRNA display CGI


Results 1 - 17 of 17 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
1511 3' -57.5 NC_001335.1 + 31904 0.66 0.602614
Target:  5'- -gGGUGGAGCuuGAacaGA-GCcggGGGCa -3'
miRNA:   3'- caCCACCUCGggCUg--CUgCGua-CUCG- -5'
1511 3' -57.5 NC_001335.1 + 7286 0.66 0.60153
Target:  5'- aGUGGUGGGGCcaaggccCCGACGGCaaggucaAUGAagGCc -3'
miRNA:   3'- -CACCACCUCG-------GGCUGCUGcg-----UACU--CG- -5'
1511 3' -57.5 NC_001335.1 + 18699 0.66 0.570226
Target:  5'- -gGGUaccGGAGUCCGGgguggUGACGUA-GAGCu -3'
miRNA:   3'- caCCA---CCUCGGGCU-----GCUGCGUaCUCG- -5'
1511 3' -57.5 NC_001335.1 + 1139 0.66 0.570226
Target:  5'- -aGGcgcUGGAGCCCccggaucgGGCGGCGUAggcGGCg -3'
miRNA:   3'- caCC---ACCUCGGG--------CUGCUGCGUac-UCG- -5'
1511 3' -57.5 NC_001335.1 + 2938 0.66 0.548868
Target:  5'- -cGGca-AGCCCGugGGCGCgAUGaAGCu -3'
miRNA:   3'- caCCaccUCGGGCugCUGCG-UAC-UCG- -5'
1511 3' -57.5 NC_001335.1 + 42295 0.67 0.527765
Target:  5'- -cGGauucGAGCgUGACGACGCGgcagagGAGCu -3'
miRNA:   3'- caCCac--CUCGgGCUGCUGCGUa-----CUCG- -5'
1511 3' -57.5 NC_001335.1 + 2093 0.67 0.517326
Target:  5'- -cGGUGaagaucGGGCUCGGCGGCuGCGUGAa- -3'
miRNA:   3'- caCCAC------CUCGGGCUGCUG-CGUACUcg -5'
1511 3' -57.5 NC_001335.1 + 9455 0.68 0.480479
Target:  5'- -aGGUcGAGCggaagaaccugauguUCGGCGGCGCAUGGGa -3'
miRNA:   3'- caCCAcCUCG---------------GGCUGCUGCGUACUCg -5'
1511 3' -57.5 NC_001335.1 + 12581 0.68 0.466495
Target:  5'- uGUGGgccaaGGAGCCUGAgcccgaagugaUGGCGCugaucGAGCg -3'
miRNA:   3'- -CACCa----CCUCGGGCU-----------GCUGCGua---CUCG- -5'
1511 3' -57.5 NC_001335.1 + 39122 0.68 0.456638
Target:  5'- cGUGGcccUGGAuaCuuGGCGucuCGCGUGAGCg -3'
miRNA:   3'- -CACC---ACCUc-GggCUGCu--GCGUACUCG- -5'
1511 3' -57.5 NC_001335.1 + 46641 0.69 0.427757
Target:  5'- -aGGaauUGGAGCCucuCGAUGugGCG-GGGCa -3'
miRNA:   3'- caCC---ACCUCGG---GCUGCugCGUaCUCG- -5'
1511 3' -57.5 NC_001335.1 + 4847 0.69 0.418372
Target:  5'- uGUGGUcGAGCCgGaACGAuuCGguUGAGCc -3'
miRNA:   3'- -CACCAcCUCGGgC-UGCU--GCguACUCG- -5'
1511 3' -57.5 NC_001335.1 + 46168 0.69 0.390986
Target:  5'- -cGGcGGAaaaGUcgCCGACGACGCAUG-GCa -3'
miRNA:   3'- caCCaCCU---CG--GGCUGCUGCGUACuCG- -5'
1511 3' -57.5 NC_001335.1 + 36609 0.72 0.252646
Target:  5'- cGUGGUGGGGUCCGgguGACGCAgaAGUc -3'
miRNA:   3'- -CACCACCUCGGGCug-CUGCGUacUCG- -5'
1511 3' -57.5 NC_001335.1 + 4940 0.74 0.205355
Target:  5'- cGUGcUGGAGCCCGACGA-GCAUcaccGGCu -3'
miRNA:   3'- -CACcACCUCGGGCUGCUgCGUAc---UCG- -5'
1511 3' -57.5 NC_001335.1 + 14705 0.75 0.161503
Target:  5'- -aGGcUGGAguucGCCgCGACGACGCGauUGAGCu -3'
miRNA:   3'- caCC-ACCU----CGG-GCUGCUGCGU--ACUCG- -5'
1511 3' -57.5 NC_001335.1 + 40985 1.1 0.000448
Target:  5'- cGUGGUGGAGCCCGACGACGCAUGAGCc -3'
miRNA:   3'- -CACCACCUCGGGCUGCUGCGUACUCG- -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.