miRNA display CGI


Results 1 - 20 of 23 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
16389 5' -53.2 NC_004084.1 + 38488 0.66 0.819277
Target:  5'- cUGGaCGAGCuGGUCGAGaucGGCcUGAUCg -3'
miRNA:   3'- cAUC-GCUCGuCCAGUUC---CUGaGCUAG- -5'
16389 5' -53.2 NC_004084.1 + 1818 0.66 0.819277
Target:  5'- -cGGCG-GCGGGUCucGGucAC-CGAUCg -3'
miRNA:   3'- caUCGCuCGUCCAGuuCC--UGaGCUAG- -5'
16389 5' -53.2 NC_004084.1 + 54849 0.66 0.800011
Target:  5'- aGUAGCGcuGGCGGGgguuGGGCUUGGcgUCg -3'
miRNA:   3'- -CAUCGC--UCGUCCaguuCCUGAGCU--AG- -5'
16389 5' -53.2 NC_004084.1 + 18537 0.67 0.769772
Target:  5'- ---uCGAGCGGGUCAuc-GCUCGAUUu -3'
miRNA:   3'- caucGCUCGUCCAGUuccUGAGCUAG- -5'
16389 5' -53.2 NC_004084.1 + 18399 0.67 0.747795
Target:  5'- -aAGCGuccaGGCGGG-CGAugugaauuuggacGGGCUCGAUCu -3'
miRNA:   3'- caUCGC----UCGUCCaGUU-------------CCUGAGCUAG- -5'
16389 5' -53.2 NC_004084.1 + 47007 0.68 0.727444
Target:  5'- --cGCGAGUuccUCGAGGACgucgCGAUCg -3'
miRNA:   3'- cauCGCUCGuccAGUUCCUGa---GCUAG- -5'
16389 5' -53.2 NC_004084.1 + 39257 0.68 0.726362
Target:  5'- -gGGCG-GCGGGaagaugguggucgUCGAucgcgucgcGGACUCGAUCg -3'
miRNA:   3'- caUCGCuCGUCC-------------AGUU---------CCUGAGCUAG- -5'
16389 5' -53.2 NC_004084.1 + 1227 0.68 0.716584
Target:  5'- -cGGCG-GCGGGaUCGAGGg--CGAUCg -3'
miRNA:   3'- caUCGCuCGUCC-AGUUCCugaGCUAG- -5'
16389 5' -53.2 NC_004084.1 + 3746 0.68 0.67128
Target:  5'- -cGGUGGGCGugccaucGGUCuggguGAGGAuCUCGAUCg -3'
miRNA:   3'- caUCGCUCGU-------CCAG-----UUCCU-GAGCUAG- -5'
16389 5' -53.2 NC_004084.1 + 42736 0.69 0.638799
Target:  5'- --cGCGAGCAGGcgAAGGACaUCGGc- -3'
miRNA:   3'- cauCGCUCGUCCagUUCCUG-AGCUag -5'
16389 5' -53.2 NC_004084.1 + 11929 0.69 0.61635
Target:  5'- -cGGCGAcgucGCGaccagCGAGGACUCGAUCg -3'
miRNA:   3'- caUCGCU----CGUcca--GUUCCUGAGCUAG- -5'
16389 5' -53.2 NC_004084.1 + 713 0.69 0.61635
Target:  5'- aGUAGCGAGCAGuucGUCcccGAGGAgcaacuCUCGAcgUCg -3'
miRNA:   3'- -CAUCGCUCGUC---CAG---UUCCU------GAGCU--AG- -5'
16389 5' -53.2 NC_004084.1 + 17174 0.71 0.53872
Target:  5'- -cGGCGAGCgcGGGUgAgaauGGGAgUCGGUCu -3'
miRNA:   3'- caUCGCUCG--UCCAgU----UCCUgAGCUAG- -5'
16389 5' -53.2 NC_004084.1 + 5349 0.71 0.506414
Target:  5'- -gAGCGGGC-GG-CGAGGACUgggaCGAUCu -3'
miRNA:   3'- caUCGCUCGuCCaGUUCCUGA----GCUAG- -5'
16389 5' -53.2 NC_004084.1 + 9052 0.71 0.495827
Target:  5'- -gAGCGGGUAGaGUCGGGcGACgucgaCGAUCa -3'
miRNA:   3'- caUCGCUCGUC-CAGUUC-CUGa----GCUAG- -5'
16389 5' -53.2 NC_004084.1 + 23064 0.72 0.485341
Target:  5'- --cGCucGCgAGGUCGaccAGGACUCGGUCg -3'
miRNA:   3'- cauCGcuCG-UCCAGU---UCCUGAGCUAG- -5'
16389 5' -53.2 NC_004084.1 + 26512 0.72 0.485341
Target:  5'- uGUAGCcgccaGAGCGGGcCugGAGGGCUCGAa- -3'
miRNA:   3'- -CAUCG-----CUCGUCCaG--UUCCUGAGCUag -5'
16389 5' -53.2 NC_004084.1 + 56205 0.72 0.454546
Target:  5'- -aAGCGAGC-GG-CGAGGACaUCGAUg -3'
miRNA:   3'- caUCGCUCGuCCaGUUCCUG-AGCUAg -5'
16389 5' -53.2 NC_004084.1 + 49200 0.72 0.454546
Target:  5'- ---uCGAGCAGGUCAuccAGGACggGAUCc -3'
miRNA:   3'- caucGCUCGUCCAGU---UCCUGagCUAG- -5'
16389 5' -53.2 NC_004084.1 + 32491 0.73 0.40475
Target:  5'- --uGCGAGCucGUCGAcgggaccgaacgcGGACUCGAUCg -3'
miRNA:   3'- cauCGCUCGucCAGUU-------------CCUGAGCUAG- -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.