miRNA display CGI


Results 1 - 20 of 29 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
16365 5' -58.5 NC_004084.1 + 17973 0.73 0.237135
Target:  5'- aCGGcGGaAUCGucGGCGCGCUGUCGAGc -3'
miRNA:   3'- -GCCuUC-UGGCucUCGCGCGGCAGCUC- -5'
16365 5' -58.5 NC_004084.1 + 29540 0.66 0.596961
Target:  5'- cCGGu-GACgCGccGGAGCGUaagcagGCCGUUGAGg -3'
miRNA:   3'- -GCCuuCUG-GC--UCUCGCG------CGGCAGCUC- -5'
16365 5' -58.5 NC_004084.1 + 52660 0.66 0.596961
Target:  5'- gCGGcGAGACgGAGAu--CGUCGUCGAGg -3'
miRNA:   3'- -GCC-UUCUGgCUCUcgcGCGGCAGCUC- -5'
16365 5' -58.5 NC_004084.1 + 3345 0.66 0.575904
Target:  5'- aCGGggGA---GGAGCGCGCCGg---- -3'
miRNA:   3'- -GCCuuCUggcUCUCGCGCGGCagcuc -5'
16365 5' -58.5 NC_004084.1 + 51315 0.67 0.55398
Target:  5'- aCGGc-GACCGAggcgaucGAGUGCGCcCG-CGAGa -3'
miRNA:   3'- -GCCuuCUGGCU-------CUCGCGCG-GCaGCUC- -5'
16365 5' -58.5 NC_004084.1 + 32097 0.67 0.534362
Target:  5'- aCGGAuGGACgagcuCGAGcAGCuCGUCGUCGAGc -3'
miRNA:   3'- -GCCU-UCUG-----GCUC-UCGcGCGGCAGCUC- -5'
16365 5' -58.5 NC_004084.1 + 30042 0.67 0.524134
Target:  5'- uCGcGggGGCCGcucGCGUcguugugccaGCCGUCGAGg -3'
miRNA:   3'- -GC-CuuCUGGCucuCGCG----------CGGCAGCUC- -5'
16365 5' -58.5 NC_004084.1 + 51157 0.68 0.47132
Target:  5'- aGGAGGcgaucgagacggucGCCGAGcaCGCGCCGaucgUCGAGg -3'
miRNA:   3'- gCCUUC--------------UGGCUCucGCGCGGC----AGCUC- -5'
16365 5' -58.5 NC_004084.1 + 28912 0.7 0.382363
Target:  5'- gCGGGuguGcCCGAGAGCGaCGUCGgccUCGGGa -3'
miRNA:   3'- -GCCUu--CuGGCUCUCGC-GCGGC---AGCUC- -5'
16365 5' -58.5 NC_004084.1 + 17023 0.7 0.382363
Target:  5'- gGGAuccgcGACCGAGcgucuGCGC-CCGUCGAu -3'
miRNA:   3'- gCCUu----CUGGCUCu----CGCGcGGCAGCUc -5'
16365 5' -58.5 NC_004084.1 + 56172 0.7 0.382363
Target:  5'- aCGGcAAGACCGAGGagaucuccGCGCugGCCGaagCGAGc -3'
miRNA:   3'- -GCC-UUCUGGCUCU--------CGCG--CGGCa--GCUC- -5'
16365 5' -58.5 NC_004084.1 + 19505 0.7 0.373845
Target:  5'- aGG-AGcCCGGGAGCGaaCGCCGguUCGAGc -3'
miRNA:   3'- gCCuUCuGGCUCUCGC--GCGGC--AGCUC- -5'
16365 5' -58.5 NC_004084.1 + 46313 0.7 0.349074
Target:  5'- aGGAuGAUCGAGAGCGUGUcaccuuCGcCGAGu -3'
miRNA:   3'- gCCUuCUGGCUCUCGCGCG------GCaGCUC- -5'
16365 5' -58.5 NC_004084.1 + 33206 0.67 0.521081
Target:  5'- uGGGAG-CCGAagacagaggcggccGAGCGgGCCGUCc-- -3'
miRNA:   3'- gCCUUCuGGCU--------------CUCGCgCGGCAGcuc -5'
16365 5' -58.5 NC_004084.1 + 6780 0.67 0.523116
Target:  5'- gCGGAAcGCCGAagacgucGGGgaucagcuccCGCGCCGUCGAc -3'
miRNA:   3'- -GCCUUcUGGCU-------CUC----------GCGCGGCAGCUc -5'
16365 5' -58.5 NC_004084.1 + 16139 0.67 0.534362
Target:  5'- aCGGguGACCGcGGuGGuCGCGCUGcUCGAGc -3'
miRNA:   3'- -GCCuuCUGGC-UC-UC-GCGCGGC-AGCUC- -5'
16365 5' -58.5 NC_004084.1 + 31037 0.66 0.573807
Target:  5'- gCGGAAG-CUGcGAGCGaaucccgcgccaGCCGUCGGu -3'
miRNA:   3'- -GCCUUCuGGCuCUCGCg-----------CGGCAGCUc -5'
16365 5' -58.5 NC_004084.1 + 7051 0.66 0.575904
Target:  5'- aGGGAGGCCagcaGAGgaacAGCGUGuacCCGUCGAc -3'
miRNA:   3'- gCCUUCUGG----CUC----UCGCGC---GGCAGCUc -5'
16365 5' -58.5 NC_004084.1 + 29399 0.66 0.606476
Target:  5'- uCGGgcGGCCacuccuGGGGCGUcgcgguuGCCGUCGAc -3'
miRNA:   3'- -GCCuuCUGGc-----UCUCGCG-------CGGCAGCUc -5'
16365 5' -58.5 NC_004084.1 + 1960 1.09 0.000599
Target:  5'- aCGGAAGACCGAGAGCGCGCCGUCGAGa -3'
miRNA:   3'- -GCCUUCUGGCUCUCGCGCGGCAGCUC- -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.