miRNA display CGI


Results 1 - 20 of 35 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
28765 3' -54.3 NC_006146.1 + 51170 0.7 0.816279
Target:  5'- cCGCUGuGGGugUGGAagGGGGUCUg- -3'
miRNA:   3'- aGUGAUuCCUugACCUg-CCCCAGGac -5'
28765 3' -54.3 NC_006146.1 + 95569 0.67 0.929217
Target:  5'- aCACcugGAcGGAGCUagauguuucugGGGCGGGG-CCUGu -3'
miRNA:   3'- aGUGa--UU-CCUUGA-----------CCUGCCCCaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 137214 0.67 0.923865
Target:  5'- aCACcccgggGAGGaAGCcgGGugGGGG-CCUGg -3'
miRNA:   3'- aGUGa-----UUCC-UUGa-CCugCCCCaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 137027 0.67 0.923865
Target:  5'- aCACcccgggGAGGAgGCcgGGugGGGG-CCUGg -3'
miRNA:   3'- aGUGa-----UUCCU-UGa-CCugCCCCaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 162449 0.68 0.900063
Target:  5'- aCACUGAGGuuuacACUGGGgaaauUGGGGUCg-- -3'
miRNA:   3'- aGUGAUUCCu----UGACCU-----GCCCCAGgac -5'
28765 3' -54.3 NC_006146.1 + 12683 0.68 0.893522
Target:  5'- aCGCUGugcaccaacuucAGGAGcCUGGccauugacaAgGGGGUCCUGa -3'
miRNA:   3'- aGUGAU------------UCCUU-GACC---------UgCCCCAGGAC- -5'
28765 3' -54.3 NC_006146.1 + 61819 0.68 0.893522
Target:  5'- aCAUUAGGGGcGCUGGugGGGG-CagUGg -3'
miRNA:   3'- aGUGAUUCCU-UGACCugCCCCaGg-AC- -5'
28765 3' -54.3 NC_006146.1 + 136986 0.69 0.886751
Target:  5'- cCACcggaccgGAGGAGCUccaGGACGGGGguaggCCg- -3'
miRNA:   3'- aGUGa------UUCCUUGA---CCUGCCCCa----GGac -5'
28765 3' -54.3 NC_006146.1 + 122484 0.69 0.865099
Target:  5'- gUUGCUcGGGGACgGcGGCGGGGUCgaGa -3'
miRNA:   3'- -AGUGAuUCCUUGaC-CUGCCCCAGgaC- -5'
28765 3' -54.3 NC_006146.1 + 21343 0.66 0.95239
Target:  5'- gUCAUUcucgGAGGGGCUGccGGCGGGcuUCCUGc -3'
miRNA:   3'- -AGUGA----UUCCUUGAC--CUGCCCc-AGGAC- -5'
28765 3' -54.3 NC_006146.1 + 116390 0.66 0.95239
Target:  5'- ----aGAGGAGgaGGgaGCGGGGcCCUGg -3'
miRNA:   3'- agugaUUCCUUgaCC--UGCCCCaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 96109 0.66 0.963507
Target:  5'- --uCUAAGGG--UGaGugGGGGUUCUGg -3'
miRNA:   3'- aguGAUUCCUugAC-CugCCCCAGGAC- -5'
28765 3' -54.3 NC_006146.1 + 103073 0.66 0.963507
Target:  5'- aCGCUGAcgcaccucacGGAGCUGuuuacuuccgaGGCGGGGcagagCCUGg -3'
miRNA:   3'- aGUGAUU----------CCUUGAC-----------CUGCCCCa----GGAC- -5'
28765 3' -54.3 NC_006146.1 + 158576 0.66 0.963507
Target:  5'- -gGCgAGGGGACUGaGGCGGG--CCUGa -3'
miRNA:   3'- agUGaUUCCUUGAC-CUGCCCcaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 155497 0.66 0.963507
Target:  5'- -gGCgAGGGGACUGaGGCGGG--CCUGa -3'
miRNA:   3'- agUGaUUCCUUGAC-CUGCCCcaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 152419 0.66 0.963507
Target:  5'- -gGCgAGGGGACUGaGGCGGG--CCUGa -3'
miRNA:   3'- agUGaUUCCUUGAC-CUGCCCcaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 149341 0.66 0.963507
Target:  5'- -gGCgAGGGGACUGaGGCGGG--CCUGa -3'
miRNA:   3'- agUGaUUCCUUGAC-CUGCCCcaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 146263 0.66 0.963507
Target:  5'- -gGCgAGGGGACUGaGGCGGG--CCUGa -3'
miRNA:   3'- agUGaUUCCUUGAC-CUGCCCcaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 143185 0.66 0.963507
Target:  5'- -gGCgAGGGGACUGaGGCGGG--CCUGa -3'
miRNA:   3'- agUGaUUCCUUGAC-CUGCCCcaGGAC- -5'
28765 3' -54.3 NC_006146.1 + 123354 0.66 0.963507
Target:  5'- cUCGCcgAGGGAgcucuggcGCUGGcCGGGGgccccgcaaCCUGg -3'
miRNA:   3'- -AGUGa-UUCCU--------UGACCuGCCCCa--------GGAC- -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.