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
12841 3' -52.1 NC_003387.1 + 44920 0.66 0.882776
Target:  5'- cGCGUCgccgGGCUGGGg--CGAcgaggcGCUCGc -3'
miRNA:   3'- -UGCAGaaa-UCGGCCCacaGCU------UGAGC- -5'
12841 3' -52.1 NC_003387.1 + 41742 0.66 0.874986
Target:  5'- gACGUCacccggcUGGCCGcGGUGUggugCGAcCUCGa -3'
miRNA:   3'- -UGCAGaa-----AUCGGC-CCACA----GCUuGAGC- -5'
12841 3' -52.1 NC_003387.1 + 10984 0.66 0.874986
Target:  5'- cGCGgcc--AGCCGGGUGaCGucCUCGg -3'
miRNA:   3'- -UGCagaaaUCGGCCCACaGCuuGAGC- -5'
12841 3' -52.1 NC_003387.1 + 18876 0.66 0.866935
Target:  5'- uCGUCa--AGCuCGGG-GUCGAucagGCUCGg -3'
miRNA:   3'- uGCAGaaaUCG-GCCCaCAGCU----UGAGC- -5'
12841 3' -52.1 NC_003387.1 + 14124 0.66 0.850082
Target:  5'- aGCGcCUcgaucaccGGCacgcucaGGGUGUCGAGCUUGa -3'
miRNA:   3'- -UGCaGAaa------UCGg------CCCACAGCUUGAGC- -5'
12841 3' -52.1 NC_003387.1 + 41009 0.67 0.840405
Target:  5'- gGCGUCgacGGCCGGGUcgacugcGUCGAcggCGa -3'
miRNA:   3'- -UGCAGaaaUCGGCCCA-------CAGCUugaGC- -5'
12841 3' -52.1 NC_003387.1 + 1378 0.67 0.828614
Target:  5'- cCGUCggcgcucagcgGGUCGGG-GUCGcGCUCGa -3'
miRNA:   3'- uGCAGaaa--------UCGGCCCaCAGCuUGAGC- -5'
12841 3' -52.1 NC_003387.1 + 39093 0.67 0.803969
Target:  5'- gACGg---UGGCCGGGU--UGAACUCa -3'
miRNA:   3'- -UGCagaaAUCGGCCCAcaGCUUGAGc -5'
12841 3' -52.1 NC_003387.1 + 11093 0.69 0.742621
Target:  5'- aGCGcCUuagcUUGGgCGcGGUcGUCGAACUCGa -3'
miRNA:   3'- -UGCaGA----AAUCgGC-CCA-CAGCUUGAGC- -5'
12841 3' -52.1 NC_003387.1 + 2256 0.69 0.721116
Target:  5'- gACGaccUCgcgGGCCGGG-GUCG-GCUCGa -3'
miRNA:   3'- -UGC---AGaaaUCGGCCCaCAGCuUGAGC- -5'
12841 3' -52.1 NC_003387.1 + 24872 0.7 0.685986
Target:  5'- gUGUCgaucguggcGCCGcGGcUGUCGAACUCGa -3'
miRNA:   3'- uGCAGaaau-----CGGC-CC-ACAGCUUGAGC- -5'
12841 3' -52.1 NC_003387.1 + 29687 0.7 0.66596
Target:  5'- gACGUCgacgUGGCCGaG-GUCGAggcGCUCGg -3'
miRNA:   3'- -UGCAGaa--AUCGGCcCaCAGCU---UGAGC- -5'
12841 3' -52.1 NC_003387.1 + 34123 0.71 0.598792
Target:  5'- gGCGUCgac-GUCGcGGUGcgCGAACUCGa -3'
miRNA:   3'- -UGCAGaaauCGGC-CCACa-GCUUGAGC- -5'
12841 3' -52.1 NC_003387.1 + 24844 0.73 0.478572
Target:  5'- cUGUCUgcGGCCGGGUGcgugguggcuggcUCGAcCUCGg -3'
miRNA:   3'- uGCAGAaaUCGGCCCAC-------------AGCUuGAGC- -5'
12841 3' -52.1 NC_003387.1 + 30237 0.75 0.373211
Target:  5'- cGCGcCagUUGGCCGGGUcGUCGGGgUCGg -3'
miRNA:   3'- -UGCaGa-AAUCGGCCCA-CAGCUUgAGC- -5'
12841 3' -52.1 NC_003387.1 + 17289 1.1 0.001936
Target:  5'- aACGUCUUUAGCCGGGUGUCGAACUCGg -3'
miRNA:   3'- -UGCAGAAAUCGGCCCACAGCUUGAGC- -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.