miRNA display CGI


Results 1 - 20 of 46 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
13281 3' -52.3 NC_003409.1 + 111322 0.66 0.980168
Target:  5'- cGGgGGGGCu--UGUGUC-UCucGCGUg -3'
miRNA:   3'- -CCaCCCCGuuuACACAGuGGuuCGCG- -5'
13281 3' -52.3 NC_003409.1 + 133477 0.66 0.979944
Target:  5'- cGGUGaGGGCccccUGUGUCugUccgccuggaaacaGGGUGCu -3'
miRNA:   3'- -CCAC-CCCGuuu-ACACAGugG-------------UUCGCG- -5'
13281 3' -52.3 NC_003409.1 + 59908 0.66 0.977841
Target:  5'- gGGUcGGGGUGAG-GUGcuUCGCUGAguuGCGCa -3'
miRNA:   3'- -CCA-CCCCGUUUaCAC--AGUGGUU---CGCG- -5'
13281 3' -52.3 NC_003409.1 + 36132 0.66 0.977841
Target:  5'- gGGUGuGGGCAAAUcaacgcugGUCaacGCCGuGUGCg -3'
miRNA:   3'- -CCAC-CCCGUUUAca------CAG---UGGUuCGCG- -5'
13281 3' -52.3 NC_003409.1 + 116842 0.66 0.977598
Target:  5'- cGGUGGGauuuucuGUGGAUGgg-CACaGAGCGCa -3'
miRNA:   3'- -CCACCC-------CGUUUACacaGUGgUUCGCG- -5'
13281 3' -52.3 NC_003409.1 + 115682 0.66 0.977598
Target:  5'- uGUGGGGCGAcuugcgccgcagaAUGUGgC-CCGGGCu- -3'
miRNA:   3'- cCACCCCGUU-------------UACACaGuGGUUCGcg -5'
13281 3' -52.3 NC_003409.1 + 11675 0.66 0.977105
Target:  5'- aGGUGGGuGgAAAUGUgGUguccacggcaaccaCGCCGGGuCGCc -3'
miRNA:   3'- -CCACCC-CgUUUACA-CA--------------GUGGUUC-GCG- -5'
13281 3' -52.3 NC_003409.1 + 53203 0.66 0.975319
Target:  5'- uGGcucgGGGGCGGAUcgGUGUgGCUgcuguucuuGGGCGUg -3'
miRNA:   3'- -CCa---CCCCGUUUA--CACAgUGG---------UUCGCG- -5'
13281 3' -52.3 NC_003409.1 + 115590 0.66 0.974523
Target:  5'- gGGUGGGGCcGGUGgccuccuccuugucUGUC-CUggGCa- -3'
miRNA:   3'- -CCACCCCGuUUAC--------------ACAGuGGuuCGcg -5'
13281 3' -52.3 NC_003409.1 + 33269 0.66 0.972593
Target:  5'- gGGUGGGGaUggGUGUGaaAgCAGGaCGUc -3'
miRNA:   3'- -CCACCCC-GuuUACACagUgGUUC-GCG- -5'
13281 3' -52.3 NC_003409.1 + 23579 0.66 0.972593
Target:  5'- cGGcUGGGGCGuccaauggAAUGgcgcgGUCGCCuAGCu- -3'
miRNA:   3'- -CC-ACCCCGU--------UUACa----CAGUGGuUCGcg -5'
13281 3' -52.3 NC_003409.1 + 119431 0.66 0.972593
Target:  5'- cGGcUGGGGCGuccaauggAAUGgcgcgGUCGCCuAGCu- -3'
miRNA:   3'- -CC-ACCCCGU--------UUACa----CAGUGGuUCGcg -5'
13281 3' -52.3 NC_003409.1 + 13330 0.66 0.972593
Target:  5'- uGUGGGuGCAGGUGgagcgaaUCGCCGGGUa- -3'
miRNA:   3'- cCACCC-CGUUUACac-----AGUGGUUCGcg -5'
13281 3' -52.3 NC_003409.1 + 118104 0.66 0.972309
Target:  5'- cGGUGuuuguGGCAguucaugucccgGAUGUGUUACUAaauggguGGCGCu -3'
miRNA:   3'- -CCACc----CCGU------------UUACACAGUGGU-------UCGCG- -5'
13281 3' -52.3 NC_003409.1 + 85330 0.66 0.969657
Target:  5'- cGGUGGcuccccGGCAuagcUGUGcUUACCAcuggacauugcGGCGCg -3'
miRNA:   3'- -CCACC------CCGUuu--ACAC-AGUGGU-----------UCGCG- -5'
13281 3' -52.3 NC_003409.1 + 134670 0.66 0.969657
Target:  5'- uGGUGGaGGC--GUGuUGUCGcCCAAGauacuaGCa -3'
miRNA:   3'- -CCACC-CCGuuUAC-ACAGU-GGUUCg-----CG- -5'
13281 3' -52.3 NC_003409.1 + 131268 0.67 0.966828
Target:  5'- aGGUGGGGCAcgaaaa----CAGGCGCa -3'
miRNA:   3'- -CCACCCCGUuuacacagugGUUCGCG- -5'
13281 3' -52.3 NC_003409.1 + 82506 0.67 0.966502
Target:  5'- --cGGGGCGGAcaGUGUCGCgcugcaccgaagCGAGCGa -3'
miRNA:   3'- ccaCCCCGUUUa-CACAGUG------------GUUCGCg -5'
13281 3' -52.3 NC_003409.1 + 114405 0.67 0.965845
Target:  5'- gGGUGGGGCuggcaagGcCcCCAaAGCGCg -3'
miRNA:   3'- -CCACCCCGuuuaca-CaGuGGU-UCGCG- -5'
13281 3' -52.3 NC_003409.1 + 82863 0.67 0.965513
Target:  5'- uGGUGGGGCGggAAUGaagacauugaaacaUG-CGCCAugguGGCGg -3'
miRNA:   3'- -CCACCCCGU--UUAC--------------ACaGUGGU----UCGCg -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.