miRNA display CGI


Results 1 - 20 of 26 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
11966 5' -54.6 NC_003278.1 + 2877 0.66 0.619251
Target:  5'- aGCGCUACugGGucaccuacaucGGCGUcGAcaccaccggcauGGGCUCu -3'
miRNA:   3'- -CGCGAUGugUU-----------CCGCGaCU------------UCCGAGc -5'
11966 5' -54.6 NC_003278.1 + 29393 0.66 0.607792
Target:  5'- gGCGgUGCGCGGcGGCGUgaucgaGAAGGC-Ca -3'
miRNA:   3'- -CGCgAUGUGUU-CCGCGa-----CUUCCGaGc -5'
11966 5' -54.6 NC_003278.1 + 19776 0.66 0.606647
Target:  5'- aGCGCU-CugGaugccgcggcuguAGGUGUUGcGGGCUUGg -3'
miRNA:   3'- -CGCGAuGugU-------------UCCGCGACuUCCGAGC- -5'
11966 5' -54.6 NC_003278.1 + 30012 0.66 0.596355
Target:  5'- gGCGUUcuggcucaucAC-CAGGGUGCcgcggaagGggGGCUCGu -3'
miRNA:   3'- -CGCGA----------UGuGUUCCGCGa-------CuuCCGAGC- -5'
11966 5' -54.6 NC_003278.1 + 10566 0.66 0.596355
Target:  5'- cGCGCgagggcaGCACGAGGgccugGCUcGAGGGCgCGg -3'
miRNA:   3'- -CGCGa------UGUGUUCCg----CGA-CUUCCGaGC- -5'
11966 5' -54.6 NC_003278.1 + 21739 0.66 0.596355
Target:  5'- gGC-CUGCGcCGGGGCGCUGGcgccgagcaccaGGGCa-- -3'
miRNA:   3'- -CGcGAUGU-GUUCCGCGACU------------UCCGagc -5'
11966 5' -54.6 NC_003278.1 + 19296 0.66 0.596355
Target:  5'- aUGCgACGCAAgGGCGCggu-GGCUCu -3'
miRNA:   3'- cGCGaUGUGUU-CCGCGacuuCCGAGc -5'
11966 5' -54.6 NC_003278.1 + 35508 0.67 0.562282
Target:  5'- -gGCUugGC-GGGCGCUGcugguGGCUUu -3'
miRNA:   3'- cgCGAugUGuUCCGCGACuu---CCGAGc -5'
11966 5' -54.6 NC_003278.1 + 14974 0.67 0.562282
Target:  5'- cGCGCUGaGCGugauGGGCGCUGcaagccGGCUgGc -3'
miRNA:   3'- -CGCGAUgUGU----UCCGCGACuu----CCGAgC- -5'
11966 5' -54.6 NC_003278.1 + 29159 0.67 0.528757
Target:  5'- uGCGCUGgaagUACAGGGC-CUGggGGaagCa -3'
miRNA:   3'- -CGCGAU----GUGUUCCGcGACuuCCga-Gc -5'
11966 5' -54.6 NC_003278.1 + 9414 0.67 0.516645
Target:  5'- cGCGCUggccucgGCGCAGuuGGCGUguUGcucguAGGCUCGc -3'
miRNA:   3'- -CGCGA-------UGUGUU--CCGCG--ACu----UCCGAGC- -5'
11966 5' -54.6 NC_003278.1 + 20729 0.68 0.464186
Target:  5'- cUGCUGCACAAcaucGGCGaguucCUGAAGGC-Ca -3'
miRNA:   3'- cGCGAUGUGUU----CCGC-----GACUUCCGaGc -5'
11966 5' -54.6 NC_003278.1 + 9611 0.68 0.464186
Target:  5'- aGCaGCUGCGCcAGGCGCUGGccauccgcgaAcGCUUGa -3'
miRNA:   3'- -CG-CGAUGUGuUCCGCGACU----------UcCGAGC- -5'
11966 5' -54.6 NC_003278.1 + 22446 0.69 0.413667
Target:  5'- cGCGCUGCAacugguCGAcGGCGCUGGucAGGUa-- -3'
miRNA:   3'- -CGCGAUGU------GUU-CCGCGACU--UCCGagc -5'
11966 5' -54.6 NC_003278.1 + 23233 0.7 0.394428
Target:  5'- gGCGCgggcggcGCGCAGGGCGCUcu-GGCggUCGc -3'
miRNA:   3'- -CGCGa------UGUGUUCCGCGAcuuCCG--AGC- -5'
11966 5' -54.6 NC_003278.1 + 30147 0.71 0.331822
Target:  5'- aGUGCUucCGCGAGcG-GCUGAAGGUUCa -3'
miRNA:   3'- -CGCGAu-GUGUUC-CgCGACUUCCGAGc -5'
11966 5' -54.6 NC_003278.1 + 32433 0.71 0.323497
Target:  5'- -gGCUGCGCcAGuCGCUGccGGCUCGc -3'
miRNA:   3'- cgCGAUGUGuUCcGCGACuuCCGAGC- -5'
11966 5' -54.6 NC_003278.1 + 4301 0.71 0.315329
Target:  5'- gGCGCUACugAGGG-GC-GAGGGUgggCGg -3'
miRNA:   3'- -CGCGAUGugUUCCgCGaCUUCCGa--GC- -5'
11966 5' -54.6 NC_003278.1 + 19702 0.71 0.315329
Target:  5'- aGCGCUGCGCcuGGCuGUUGAuGGCg-- -3'
miRNA:   3'- -CGCGAUGUGuuCCG-CGACUuCCGagc -5'
11966 5' -54.6 NC_003278.1 + 9099 0.73 0.262519
Target:  5'- aGCGUU-CGCcAGGCGCUGGu-GCUCGg -3'
miRNA:   3'- -CGCGAuGUGuUCCGCGACUucCGAGC- -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.