miRNA display CGI


Results 1 - 20 of 32 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
13441 3' -57.1 NC_003409.1 + 111156 1.1 0.00172
Target:  5'- cACCUCACGCGAGAGACACAAGCCCCCc -3'
miRNA:   3'- -UGGAGUGCGCUCUCUGUGUUCGGGGG- -5'
13441 3' -57.1 NC_003409.1 + 110937 0.72 0.517107
Target:  5'- cACCgaUCACGCGAuaugagagGAcGGCGCuccAGCCCCCc -3'
miRNA:   3'- -UGG--AGUGCGCU--------CU-CUGUGu--UCGGGGG- -5'
13441 3' -57.1 NC_003409.1 + 18704 0.71 0.56667
Target:  5'- aGCCUUAUuaugGCaGGAGACACuauAAGCCCCa -3'
miRNA:   3'- -UGGAGUG----CGcUCUCUGUG---UUCGGGGg -5'
13441 3' -57.1 NC_003409.1 + 106424 0.71 0.597
Target:  5'- gGCCUCACGCaccugcAGAGGCGguaGAGCCacuaCCCg -3'
miRNA:   3'- -UGGAGUGCGc-----UCUCUGUg--UUCGG----GGG- -5'
13441 3' -57.1 NC_003409.1 + 24164 0.7 0.607171
Target:  5'- cGCCgggaACGCuauaaaaacGAGGGACAgcAGCCCCCc -3'
miRNA:   3'- -UGGag--UGCG---------CUCUCUGUguUCGGGGG- -5'
13441 3' -57.1 NC_003409.1 + 76334 0.7 0.607171
Target:  5'- --gUCACGUGGGAGGuCACGGGacgcucuuccuCCCCCg -3'
miRNA:   3'- uggAGUGCGCUCUCU-GUGUUC-----------GGGGG- -5'
13441 3' -57.1 NC_003409.1 + 78964 0.7 0.637765
Target:  5'- uGCCgUUACGCGccagccGGAGGCAacuuuaccCAAGCCaCCCa -3'
miRNA:   3'- -UGG-AGUGCGC------UCUCUGU--------GUUCGG-GGG- -5'
13441 3' -57.1 NC_003409.1 + 105882 0.7 0.658151
Target:  5'- cGCCUCGCGUGAGAGGgAgAcGUCCa- -3'
miRNA:   3'- -UGGAGUGCGCUCUCUgUgUuCGGGgg -5'
13441 3' -57.1 NC_003409.1 + 109846 0.7 0.658151
Target:  5'- cGCCgCG-GCGGGAGGCGguGGCgCCCg -3'
miRNA:   3'- -UGGaGUgCGCUCUCUGUguUCGgGGG- -5'
13441 3' -57.1 NC_003409.1 + 63332 0.69 0.698606
Target:  5'- gGCC-CugGCGAGAcuGACugGAGUgCCa -3'
miRNA:   3'- -UGGaGugCGCUCU--CUGugUUCGgGGg -5'
13441 3' -57.1 NC_003409.1 + 101143 0.69 0.698606
Target:  5'- gGCCUgAgUGgGGGAGGCGgGAGCCUUCa -3'
miRNA:   3'- -UGGAgU-GCgCUCUCUGUgUUCGGGGG- -5'
13441 3' -57.1 NC_003409.1 + 106976 0.69 0.698606
Target:  5'- gUCUCACGgaCGggcuugucaGGAGGUGCGGGCCCCCg -3'
miRNA:   3'- uGGAGUGC--GC---------UCUCUGUGUUCGGGGG- -5'
13441 3' -57.1 NC_003409.1 + 18318 0.69 0.698606
Target:  5'- gACUUgUAC-CGGGAGGCGCucacuGGCCCCUg -3'
miRNA:   3'- -UGGA-GUGcGCUCUCUGUGu----UCGGGGG- -5'
13441 3' -57.1 NC_003409.1 + 131206 0.68 0.747857
Target:  5'- gGCCaugaGCGCGuacGGGGCACu-GCUCCCa -3'
miRNA:   3'- -UGGag--UGCGCu--CUCUGUGuuCGGGGG- -5'
13441 3' -57.1 NC_003409.1 + 114386 0.68 0.757441
Target:  5'- gACaCUCAUgGCGAcagcgggguGGGGCugGcaaGGCCCCCa -3'
miRNA:   3'- -UG-GAGUG-CGCU---------CUCUGugU---UCGGGGG- -5'
13441 3' -57.1 NC_003409.1 + 45074 0.67 0.776269
Target:  5'- ---cCAUGaCGAGAGACACGuccuggacguGGCgCCCCu -3'
miRNA:   3'- uggaGUGC-GCUCUCUGUGU----------UCG-GGGG- -5'
13441 3' -57.1 NC_003409.1 + 87708 0.67 0.776269
Target:  5'- cACCUCugGCGccacAGGGAUu---GCUCCCc -3'
miRNA:   3'- -UGGAGugCGC----UCUCUGuguuCGGGGG- -5'
13441 3' -57.1 NC_003409.1 + 48292 0.67 0.794585
Target:  5'- cUCUaCACGCGAGccGGACGgCAGGCCUa- -3'
miRNA:   3'- uGGA-GUGCGCUC--UCUGU-GUUCGGGgg -5'
13441 3' -57.1 NC_003409.1 + 92277 0.67 0.803529
Target:  5'- gGCCUCugGgacuUGGGAGcaaauaACGAuGCCCCCc -3'
miRNA:   3'- -UGGAGugC----GCUCUCug----UGUU-CGGGGG- -5'
13441 3' -57.1 NC_003409.1 + 58309 0.67 0.820945
Target:  5'- uCCUCuuuuUGCGAG-GACAC--GCCuCCCa -3'
miRNA:   3'- uGGAGu---GCGCUCuCUGUGuuCGG-GGG- -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.