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
7206 3' -58.7 NC_001900.1 + 14729 0.66 0.557852
Target:  5'- uCGCGGCGUucguUACCGACGccGGGaaGaCCGa -3'
miRNA:   3'- -GUGCUGCG----AUGGCUGC--UCCggCaGGC- -5'
7206 3' -58.7 NC_001900.1 + 9272 0.66 0.54739
Target:  5'- cUACGAgGCUgagcGCCGACcaGAGGCCaUCgGc -3'
miRNA:   3'- -GUGCUgCGA----UGGCUG--CUCCGGcAGgC- -5'
7206 3' -58.7 NC_001900.1 + 48723 0.66 0.536991
Target:  5'- gCGCGGCGCUAgauCCGGCGGuuGCCGgaucaauuccCCGg -3'
miRNA:   3'- -GUGCUGCGAU---GGCUGCUc-CGGCa---------GGC- -5'
7206 3' -58.7 NC_001900.1 + 27192 0.66 0.536991
Target:  5'- gACGACG-UGCUGuCGcGGGUCGUUCGg -3'
miRNA:   3'- gUGCUGCgAUGGCuGC-UCCGGCAGGC- -5'
7206 3' -58.7 NC_001900.1 + 17658 0.66 0.506234
Target:  5'- --aGGCGCUACCGAuCGAugugcaGGCUGUUgGc -3'
miRNA:   3'- gugCUGCGAUGGCU-GCU------CCGGCAGgC- -5'
7206 3' -58.7 NC_001900.1 + 31199 0.67 0.496147
Target:  5'- gACGAUuggGCCGACGAccuccuucuuGGCCGUgCCGu -3'
miRNA:   3'- gUGCUGcgaUGGCUGCU----------CCGGCA-GGC- -5'
7206 3' -58.7 NC_001900.1 + 36057 0.67 0.496147
Target:  5'- gAUGGCGUgcuUGCUGcCaGGGCCGUCCu -3'
miRNA:   3'- gUGCUGCG---AUGGCuGcUCCGGCAGGc -5'
7206 3' -58.7 NC_001900.1 + 31078 0.67 0.496147
Target:  5'- aACGACGUUGauggUGACGAGGUC-UCCu -3'
miRNA:   3'- gUGCUGCGAUg---GCUGCUCCGGcAGGc -5'
7206 3' -58.7 NC_001900.1 + 9911 0.67 0.486152
Target:  5'- aGCGAuCGaCUACCuGCGuaagcccccGGCCGUCCa -3'
miRNA:   3'- gUGCU-GC-GAUGGcUGCu--------CCGGCAGGc -5'
7206 3' -58.7 NC_001900.1 + 45118 0.67 0.486152
Target:  5'- gGCcGCGUUcGCCGugGAGGCgGguaCCGg -3'
miRNA:   3'- gUGcUGCGA-UGGCugCUCCGgCa--GGC- -5'
7206 3' -58.7 NC_001900.1 + 34861 0.67 0.486152
Target:  5'- --aGAgGC-ACCGGCccaGAGGCCGUgCCGc -3'
miRNA:   3'- gugCUgCGaUGGCUG---CUCCGGCA-GGC- -5'
7206 3' -58.7 NC_001900.1 + 959 0.67 0.476254
Target:  5'- cCGCGACuGCUGCUGGCcuacGGCCGgCUGc -3'
miRNA:   3'- -GUGCUG-CGAUGGCUGcu--CCGGCaGGC- -5'
7206 3' -58.7 NC_001900.1 + 29959 0.67 0.47527
Target:  5'- cCAUGACGUgACCGgggucaGCGAGGaagcaccgacgcaCCGUCCa -3'
miRNA:   3'- -GUGCUGCGaUGGC------UGCUCC-------------GGCAGGc -5'
7206 3' -58.7 NC_001900.1 + 35764 0.68 0.437714
Target:  5'- aAC-ACGCcGCCGACGuacugcuccAGGUCGUCCu -3'
miRNA:   3'- gUGcUGCGaUGGCUGC---------UCCGGCAGGc -5'
7206 3' -58.7 NC_001900.1 + 6731 0.68 0.419126
Target:  5'- uGCGGC-CUucCCGAUGuGGCCGUCgGu -3'
miRNA:   3'- gUGCUGcGAu-GGCUGCuCCGGCAGgC- -5'
7206 3' -58.7 NC_001900.1 + 25730 0.68 0.392163
Target:  5'- gACGACGaucuucucGCCGACGcGGGCCGcgccCCGg -3'
miRNA:   3'- gUGCUGCga------UGGCUGC-UCCGGCa---GGC- -5'
7206 3' -58.7 NC_001900.1 + 33294 0.69 0.366354
Target:  5'- gACaACGCgucgGCCGGCGcAGGCCGcaccUCCa -3'
miRNA:   3'- gUGcUGCGa---UGGCUGC-UCCGGC----AGGc -5'
7206 3' -58.7 NC_001900.1 + 5581 0.7 0.333805
Target:  5'- gGCGGCGC-ACCGAgcuGGCCGgCCGa -3'
miRNA:   3'- gUGCUGCGaUGGCUgcuCCGGCaGGC- -5'
7206 3' -58.7 NC_001900.1 + 609 0.7 0.318343
Target:  5'- -uUGACGaCUACCGAuuCGAGaCCGUCUGg -3'
miRNA:   3'- guGCUGC-GAUGGCU--GCUCcGGCAGGC- -5'
7206 3' -58.7 NC_001900.1 + 21572 0.7 0.310816
Target:  5'- uGCGcCGCUacaucGCCGACGgccggcucaAGGCCGUgCGg -3'
miRNA:   3'- gUGCuGCGA-----UGGCUGC---------UCCGGCAgGC- -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.