miRNA display CGI


Results 1 - 20 of 30 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
19336 5' -58.2 NC_004685.1 + 62815 0.66 0.635361
Target:  5'- -gGGGAACCgGGGCCGGCUgagcCGG-GGc -3'
miRNA:   3'- ugCCUUUGG-CCCGGCUGGa---GCUaCCa -5'
19336 5' -58.2 NC_004685.1 + 21529 0.66 0.635361
Target:  5'- cCGGGccacAUCGGGCCaGCCggGGUGGUg -3'
miRNA:   3'- uGCCUu---UGGCCCGGcUGGagCUACCA- -5'
19336 5' -58.2 NC_004685.1 + 16256 0.66 0.635361
Target:  5'- -aGcGAGACCGaGGCCGucgACCU-GAUGGa -3'
miRNA:   3'- ugC-CUUUGGC-CCGGC---UGGAgCUACCa -5'
19336 5' -58.2 NC_004685.1 + 16771 0.66 0.624795
Target:  5'- aGCGGAGACCuGGGCUauGCgCUCGGUccccGGUu -3'
miRNA:   3'- -UGCCUUUGG-CCCGGc-UG-GAGCUA----CCA- -5'
19336 5' -58.2 NC_004685.1 + 58311 0.67 0.603691
Target:  5'- cGCGGAccuuggucGGCCcGGCCGgcacaGCCUCGGUGu- -3'
miRNA:   3'- -UGCCU--------UUGGcCCGGC-----UGGAGCUACca -5'
19336 5' -58.2 NC_004685.1 + 13747 0.67 0.592118
Target:  5'- gACGGcaucGCCGGGCUGcugcuggcguaccGCCcCGAUGGc -3'
miRNA:   3'- -UGCCuu--UGGCCCGGC-------------UGGaGCUACCa -5'
19336 5' -58.2 NC_004685.1 + 11771 0.67 0.582677
Target:  5'- -aGGAcGgCGGGCCGcCCacucCGGUGGUg -3'
miRNA:   3'- ugCCUuUgGCCCGGCuGGa---GCUACCA- -5'
19336 5' -58.2 NC_004685.1 + 39371 0.67 0.572223
Target:  5'- gGCGGAAacggcacaacACCGGGCggcgCGGCCaaUGGUGGg -3'
miRNA:   3'- -UGCCUU----------UGGCCCG----GCUGGa-GCUACCa -5'
19336 5' -58.2 NC_004685.1 + 56145 0.67 0.571179
Target:  5'- uGCGGAcccucaaGACCGcGGUCGguGCCUCGucgGGg -3'
miRNA:   3'- -UGCCU-------UUGGC-CCGGC--UGGAGCua-CCa -5'
19336 5' -58.2 NC_004685.1 + 66454 0.67 0.561813
Target:  5'- cCGGAcuCCucGGCCG-CCUUGGUGGg -3'
miRNA:   3'- uGCCUuuGGc-CCGGCuGGAGCUACCa -5'
19336 5' -58.2 NC_004685.1 + 33860 0.67 0.551456
Target:  5'- -aGGGugauaCGGGCCGACCUCGuUGc- -3'
miRNA:   3'- ugCCUuug--GCCCGGCUGGAGCuACca -5'
19336 5' -58.2 NC_004685.1 + 64353 0.68 0.541158
Target:  5'- cGCGGAGACgaUGGGCCagcuUCUCGAUGcGg -3'
miRNA:   3'- -UGCCUUUG--GCCCGGcu--GGAGCUAC-Ca -5'
19336 5' -58.2 NC_004685.1 + 35396 0.68 0.541158
Target:  5'- cGCGGAucACCGGcCCGACCggcaCGGUGa- -3'
miRNA:   3'- -UGCCUu-UGGCCcGGCUGGa---GCUACca -5'
19336 5' -58.2 NC_004685.1 + 57548 0.68 0.541158
Target:  5'- -aGGAAcgagcugcgcGCCaGGCCGAucaUCUCGAUGGc -3'
miRNA:   3'- ugCCUU----------UGGcCCGGCU---GGAGCUACCa -5'
19336 5' -58.2 NC_004685.1 + 31928 0.68 0.520764
Target:  5'- uACGGuccuAGCCGGG-CGugUUCGAUGa- -3'
miRNA:   3'- -UGCCu---UUGGCCCgGCugGAGCUACca -5'
19336 5' -58.2 NC_004685.1 + 37146 0.68 0.510679
Target:  5'- cCGGcguGGCCGGGCCGACgC-CGGgaaGGUu -3'
miRNA:   3'- uGCCu--UUGGCCCGGCUG-GaGCUa--CCA- -5'
19336 5' -58.2 NC_004685.1 + 33369 0.68 0.490761
Target:  5'- aGCGGGAugCGGaacuguGCC-ACCUCGAUGa- -3'
miRNA:   3'- -UGCCUUugGCC------CGGcUGGAGCUACca -5'
19336 5' -58.2 NC_004685.1 + 9947 0.68 0.48682
Target:  5'- aACGGAucaccgaggacguGCCGGGCUGGCCgaCGAcgccgUGGg -3'
miRNA:   3'- -UGCCUu------------UGGCCCGGCUGGa-GCU-----ACCa -5'
19336 5' -58.2 NC_004685.1 + 20362 0.69 0.471211
Target:  5'- uCGGAGcugcugGCCGcGGCCGAgcaguaCCUCGAUGa- -3'
miRNA:   3'- uGCCUU------UGGC-CCGGCU------GGAGCUACca -5'
19336 5' -58.2 NC_004685.1 + 68586 0.69 0.452064
Target:  5'- uCGGAAACCGaacaccagccGGCCGGCC-CaAUGGUc -3'
miRNA:   3'- uGCCUUUGGC----------CCGGCUGGaGcUACCA- -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.