miRNA display CGI


Results 1 - 20 of 25 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
13309 3' -53.7 NC_003409.1 + 102483 0.66 0.963026
Target:  5'- cGCGUguaCGCCGCgCUgcCCUCGCAacucaUGCg -3'
miRNA:   3'- -UGCAaaaGUGGUG-GA--GGAGCGUg----GCG- -5'
13309 3' -53.7 NC_003409.1 + 133478 0.66 0.955666
Target:  5'- uGCGcaccaUCGCCACCacUCCUgGCAaCGCc -3'
miRNA:   3'- -UGCaaa--AGUGGUGG--AGGAgCGUgGCG- -5'
13309 3' -53.7 NC_003409.1 + 67970 0.66 0.955666
Target:  5'- uCGUgg-CGCC-CC-CUgCGCGCCGCa -3'
miRNA:   3'- uGCAaaaGUGGuGGaGGaGCGUGGCG- -5'
13309 3' -53.7 NC_003409.1 + 3356 0.66 0.951637
Target:  5'- --aUUUUCACUACCUCUuUUGCACgGg -3'
miRNA:   3'- ugcAAAAGUGGUGGAGG-AGCGUGgCg -5'
13309 3' -53.7 NC_003409.1 + 9946 0.66 0.951637
Target:  5'- cACGUcaUCGCCGCCccCCUCcGCAUCc- -3'
miRNA:   3'- -UGCAaaAGUGGUGGa-GGAG-CGUGGcg -5'
13309 3' -53.7 NC_003409.1 + 22242 0.66 0.951637
Target:  5'- cGCGUg--CGCCGCUUCgCagGCGacCCGCa -3'
miRNA:   3'- -UGCAaaaGUGGUGGAG-GagCGU--GGCG- -5'
13309 3' -53.7 NC_003409.1 + 42758 0.67 0.94286
Target:  5'- -----cUgGCCACCaaCUCGCACCuGCa -3'
miRNA:   3'- ugcaaaAgUGGUGGagGAGCGUGG-CG- -5'
13309 3' -53.7 NC_003409.1 + 36544 0.67 0.937618
Target:  5'- gACGUggUCGCCAuucucacCCUCUccaGCGCCGa -3'
miRNA:   3'- -UGCAaaAGUGGU-------GGAGGag-CGUGGCg -5'
13309 3' -53.7 NC_003409.1 + 3220 0.67 0.927861
Target:  5'- uGCGUggUCACCGCC-CCUaaaauagccaaUGCACUugGCc -3'
miRNA:   3'- -UGCAaaAGUGGUGGaGGA-----------GCGUGG--CG- -5'
13309 3' -53.7 NC_003409.1 + 50955 0.68 0.910637
Target:  5'- -----cUCGCCACaCUCUucauuUCGCACCGg -3'
miRNA:   3'- ugcaaaAGUGGUG-GAGG-----AGCGUGGCg -5'
13309 3' -53.7 NC_003409.1 + 18864 0.68 0.904405
Target:  5'- -gGUUcUC-CCGCUUCCUUGUACCcuGCa -3'
miRNA:   3'- ugCAAaAGuGGUGGAGGAGCGUGG--CG- -5'
13309 3' -53.7 NC_003409.1 + 99676 0.68 0.904405
Target:  5'- uACGUUUUUG--GCUaCCUCGCugCGCa -3'
miRNA:   3'- -UGCAAAAGUggUGGaGGAGCGugGCG- -5'
13309 3' -53.7 NC_003409.1 + 32750 0.68 0.891215
Target:  5'- uGCGUcccaggACCACCUCgUCGUAggucCCGCa -3'
miRNA:   3'- -UGCAaaag--UGGUGGAGgAGCGU----GGCG- -5'
13309 3' -53.7 NC_003409.1 + 8927 0.68 0.891215
Target:  5'- gACGUcugaaaggugUCACC-CCUCgagUGCGCCGCg -3'
miRNA:   3'- -UGCAaa--------AGUGGuGGAGga-GCGUGGCG- -5'
13309 3' -53.7 NC_003409.1 + 107239 0.69 0.862047
Target:  5'- aACGUg-UCGCCAcCCUCCugcaacaggcUCcCACCGCg -3'
miRNA:   3'- -UGCAaaAGUGGU-GGAGG----------AGcGUGGCG- -5'
13309 3' -53.7 NC_003409.1 + 109615 0.7 0.829451
Target:  5'- uGCGUg--CGCCGCCUCCgcgUGCgaagGCUGUu -3'
miRNA:   3'- -UGCAaaaGUGGUGGAGGa--GCG----UGGCG- -5'
13309 3' -53.7 NC_003409.1 + 46103 0.7 0.820818
Target:  5'- -----gUCACCGCgUCCgaacguaccUCGCGCCGUa -3'
miRNA:   3'- ugcaaaAGUGGUGgAGG---------AGCGUGGCG- -5'
13309 3' -53.7 NC_003409.1 + 79073 0.7 0.803028
Target:  5'- -gGUUUUCACgGUCUCCUgGCAgcCCGCc -3'
miRNA:   3'- ugCAAAAGUGgUGGAGGAgCGU--GGCG- -5'
13309 3' -53.7 NC_003409.1 + 38138 0.71 0.784598
Target:  5'- uAUGUccggCGCCGCCUCUUgaGCugCGCa -3'
miRNA:   3'- -UGCAaaa-GUGGUGGAGGAg-CGugGCG- -5'
13309 3' -53.7 NC_003409.1 + 30782 0.71 0.755911
Target:  5'- cGCGUUaUCuCCugCUCaUCGCgACCGCu -3'
miRNA:   3'- -UGCAAaAGuGGugGAGgAGCG-UGGCG- -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.