miRNA display CGI


Results 1 - 19 of 19 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
7364 5' -59.5 NC_001900.1 + 8917 0.66 0.478616
Target:  5'- aGAGuCGCGgcAGCGGuccuGCUGGA-CGCgGCUg -3'
miRNA:   3'- -CUC-GCGC--UCGCU----UGGCCUuGCGgCGA- -5'
7364 5' -59.5 NC_001900.1 + 3129 0.66 0.468693
Target:  5'- gGAGCGCGAagGCGAggACCGcGAGauccuCGCgGCc -3'
miRNA:   3'- -CUCGCGCU--CGCU--UGGC-CUU-----GCGgCGa -5'
7364 5' -59.5 NC_001900.1 + 23000 0.66 0.468693
Target:  5'- cGGGCGUG-GUGGGCCGGGAUGgguaaGCa -3'
miRNA:   3'- -CUCGCGCuCGCUUGGCCUUGCgg---CGa -5'
7364 5' -59.5 NC_001900.1 + 44051 0.66 0.449171
Target:  5'- -uGUGCGAGU--ACCGGccccCGCCGCc -3'
miRNA:   3'- cuCGCGCUCGcuUGGCCuu--GCGGCGa -5'
7364 5' -59.5 NC_001900.1 + 20104 0.66 0.448206
Target:  5'- aAGCGCGAGCaGGagcgacugaagccACCGGAcguagaGCUGCg -3'
miRNA:   3'- cUCGCGCUCG-CU-------------UGGCCUug----CGGCGa -5'
7364 5' -59.5 NC_001900.1 + 3914 0.66 0.430105
Target:  5'- cGAGUucgucgGCGAGCuGGCCGaGACGCCGgUa -3'
miRNA:   3'- -CUCG------CGCUCGcUUGGCcUUGCGGCgA- -5'
7364 5' -59.5 NC_001900.1 + 1154 0.67 0.420753
Target:  5'- cGGCGUGGGUGGACUuGGAgGCgGCg -3'
miRNA:   3'- cUCGCGCUCGCUUGGcCUUgCGgCGa -5'
7364 5' -59.5 NC_001900.1 + 40734 0.67 0.411524
Target:  5'- cAGCGgucAGCGAugucgucagcGCCGcGAGCGCCGCc -3'
miRNA:   3'- cUCGCgc-UCGCU----------UGGC-CUUGCGGCGa -5'
7364 5' -59.5 NC_001900.1 + 32434 0.67 0.402422
Target:  5'- uGGGcCGCGuucaggucGGCGuuGACCGGAACGUCGg- -3'
miRNA:   3'- -CUC-GCGC--------UCGC--UUGGCCUUGCGGCga -5'
7364 5' -59.5 NC_001900.1 + 25001 0.67 0.384605
Target:  5'- -uGCGCGA-CGGucccuGCCGGGAUaGCCGCc -3'
miRNA:   3'- cuCGCGCUcGCU-----UGGCCUUG-CGGCGa -5'
7364 5' -59.5 NC_001900.1 + 26093 0.67 0.384605
Target:  5'- aGGGCGgGggucaucucGGCG-ACCGGggUGUCGCc -3'
miRNA:   3'- -CUCGCgC---------UCGCuUGGCCuuGCGGCGa -5'
7364 5' -59.5 NC_001900.1 + 12724 0.69 0.311129
Target:  5'- aGGcCGCGAGCccguuccguucGGGCCGGAuCGUCGCc -3'
miRNA:   3'- cUC-GCGCUCG-----------CUUGGCCUuGCGGCGa -5'
7364 5' -59.5 NC_001900.1 + 43825 0.7 0.275149
Target:  5'- -uGCGCGAGCGAGgauuUCGGcAGCGUCGaCa -3'
miRNA:   3'- cuCGCGCUCGCUU----GGCC-UUGCGGC-Ga -5'
7364 5' -59.5 NC_001900.1 + 42560 0.7 0.255204
Target:  5'- uGGCcaGCGGGcCGAGCUGGGggaccGCGCCGUUg -3'
miRNA:   3'- cUCG--CGCUC-GCUUGGCCU-----UGCGGCGA- -5'
7364 5' -59.5 NC_001900.1 + 10456 0.7 0.255204
Target:  5'- cGAGCGCGAG-GAgaugcgccGCUGGGACgaggaagagGCCGCg -3'
miRNA:   3'- -CUCGCGCUCgCU--------UGGCCUUG---------CGGCGa -5'
7364 5' -59.5 NC_001900.1 + 21552 0.71 0.224615
Target:  5'- cGGCGUGAGCaccaagaCGGuGCGCCGCUa -3'
miRNA:   3'- cUCGCGCUCGcuug---GCCuUGCGGCGA- -5'
7364 5' -59.5 NC_001900.1 + 47705 0.73 0.168189
Target:  5'- uGGuCGCGGGCGGcgACCGccagcgcguuGAACGCCGCa -3'
miRNA:   3'- cUC-GCGCUCGCU--UGGC----------CUUGCGGCGa -5'
7364 5' -59.5 NC_001900.1 + 6009 0.75 0.108415
Target:  5'- cGGCGCGAgccggugaccuccGCGAGCUGGAgcgaguuguccGCGCCGCc -3'
miRNA:   3'- cUCGCGCU-------------CGCUUGGCCU-----------UGCGGCGa -5'
7364 5' -59.5 NC_001900.1 + 43810 1.06 0.000532
Target:  5'- uGAGCGCGAGCGAACCGGAACGCCGCUu -3'
miRNA:   3'- -CUCGCGCUCGCUUGGCCUUGCGGCGA- -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.