miRNA display CGI


Results 1 - 20 of 28 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
18391 3' -59.8 NC_004681.1 + 33101 0.66 0.577286
Target:  5'- aGGUcgGC-AgGCCGCUACCGGgguaGCUGAc -3'
miRNA:   3'- gCCG--CGaUgCGGCGAUGGUC----CGACUc -5'
18391 3' -59.8 NC_004681.1 + 62624 0.66 0.577286
Target:  5'- aCGGUGUcggAgGCgGCUGCCAGGgUGc- -3'
miRNA:   3'- -GCCGCGa--UgCGgCGAUGGUCCgACuc -5'
18391 3' -59.8 NC_004681.1 + 56093 0.66 0.566922
Target:  5'- uGGCGUcGCGCUGCgugaggGCCuGGCagccGAGc -3'
miRNA:   3'- gCCGCGaUGCGGCGa-----UGGuCCGa---CUC- -5'
18391 3' -59.8 NC_004681.1 + 40152 0.66 0.556606
Target:  5'- aGGcCGCgACGCCGCagAUCgAGGCgaUGAGa -3'
miRNA:   3'- gCC-GCGaUGCGGCGa-UGG-UCCG--ACUC- -5'
18391 3' -59.8 NC_004681.1 + 29754 0.66 0.546346
Target:  5'- uCGaGCGCUuccGCGaCCuGCUGCCAGGUg--- -3'
miRNA:   3'- -GC-CGCGA---UGC-GG-CGAUGGUCCGacuc -5'
18391 3' -59.8 NC_004681.1 + 31184 0.66 0.529045
Target:  5'- gCGGCaaucaauccGCUggcaucaACGCCGCUuucgaggacaucgcaGCguGGCUGGGg -3'
miRNA:   3'- -GCCG---------CGA-------UGCGGCGA---------------UGguCCGACUC- -5'
18391 3' -59.8 NC_004681.1 + 27859 0.66 0.522987
Target:  5'- cCGcCGCUGcCGCCGCUGCCgcgcgucaccgaauAGGUgGAGc -3'
miRNA:   3'- -GCcGCGAU-GCGGCGAUGG--------------UCCGaCUC- -5'
18391 3' -59.8 NC_004681.1 + 16776 0.67 0.515953
Target:  5'- cCGGUGCUcggaGCGCCGUcGCCAGcaccagUGAGa -3'
miRNA:   3'- -GCCGCGA----UGCGGCGaUGGUCcg----ACUC- -5'
18391 3' -59.8 NC_004681.1 + 52230 0.67 0.505972
Target:  5'- -aGCuGCUugGCCGCcACCuugAGGCUGcGGg -3'
miRNA:   3'- gcCG-CGAugCGGCGaUGG---UCCGAC-UC- -5'
18391 3' -59.8 NC_004681.1 + 16578 0.67 0.496074
Target:  5'- gGGCGCgGCGCCGaguaguCCgugggGGGCUGGa -3'
miRNA:   3'- gCCGCGaUGCGGCgau---GG-----UCCGACUc -5'
18391 3' -59.8 NC_004681.1 + 18773 0.67 0.486265
Target:  5'- aGGCgGCUGC-CCGUUGCCcugaugcuGCUGAGg -3'
miRNA:   3'- gCCG-CGAUGcGGCGAUGGuc------CGACUC- -5'
18391 3' -59.8 NC_004681.1 + 19337 0.67 0.46693
Target:  5'- uGGCGCU-UGCUGCggACguGGgaGAGg -3'
miRNA:   3'- gCCGCGAuGCGGCGa-UGguCCgaCUC- -5'
18391 3' -59.8 NC_004681.1 + 22281 0.68 0.457413
Target:  5'- gCGGCGUggGCGCC-CUGCCcgucauggcgcAGGgUGAGc -3'
miRNA:   3'- -GCCGCGa-UGCGGcGAUGG-----------UCCgACUC- -5'
18391 3' -59.8 NC_004681.1 + 30872 0.68 0.448
Target:  5'- uGGCGCg--GCCGUUggugACCAGGCccuugGAGc -3'
miRNA:   3'- gCCGCGaugCGGCGA----UGGUCCGa----CUC- -5'
18391 3' -59.8 NC_004681.1 + 12056 0.68 0.448
Target:  5'- uCGGCGUUGacgGCCGCauggACgAGGCcGAGu -3'
miRNA:   3'- -GCCGCGAUg--CGGCGa---UGgUCCGaCUC- -5'
18391 3' -59.8 NC_004681.1 + 39324 0.68 0.438696
Target:  5'- gCGGCGC-ACGgugaGCUgacagucgACCAGGCUGAc -3'
miRNA:   3'- -GCCGCGaUGCgg--CGA--------UGGUCCGACUc -5'
18391 3' -59.8 NC_004681.1 + 61219 0.68 0.429503
Target:  5'- uGGCGCgACGCCGCcgagaACguGGCgGAa -3'
miRNA:   3'- gCCGCGaUGCGGCGa----UGguCCGaCUc -5'
18391 3' -59.8 NC_004681.1 + 1059 0.69 0.3939
Target:  5'- cCGGgGCUcguaGCGCCGgUAggUCAGGgUGAGg -3'
miRNA:   3'- -GCCgCGA----UGCGGCgAU--GGUCCgACUC- -5'
18391 3' -59.8 NC_004681.1 + 1175 0.69 0.3939
Target:  5'- aGGCGCU-CG-CGCUGCCAGGgCUc-- -3'
miRNA:   3'- gCCGCGAuGCgGCGAUGGUCC-GAcuc -5'
18391 3' -59.8 NC_004681.1 + 58656 0.69 0.37683
Target:  5'- aCGGcCGcCUGCGCCGCggGCCAcaccugccugauGGCgGGGg -3'
miRNA:   3'- -GCC-GC-GAUGCGGCGa-UGGU------------CCGaCUC- -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.