miRNA display CGI


Results 1 - 20 of 22 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
20417 5' -55.5 NC_004688.1 + 64034 0.66 0.879712
Target:  5'- gGCAGGGAccugacacgGCCGagcGAGCUggccucauaccCCGGAAGg -3'
miRNA:   3'- -CGUUCCU---------UGGCgu-CUCGGa----------GGCCUUC- -5'
20417 5' -55.5 NC_004688.1 + 23149 0.66 0.872331
Target:  5'- -aGAGGGAUUGgAGGGCCUCgGcGAAc -3'
miRNA:   3'- cgUUCCUUGGCgUCUCGGAGgC-CUUc -5'
20417 5' -55.5 NC_004688.1 + 75594 0.66 0.872331
Target:  5'- uGCGAcGGGgugucggccGCCGCGGAcuCCUCCGGcuGa -3'
miRNA:   3'- -CGUU-CCU---------UGGCGUCUc-GGAGGCCuuC- -5'
20417 5' -55.5 NC_004688.1 + 14908 0.66 0.864725
Target:  5'- aCGAGG--CCGUGGAGCUUCCGcAGGc -3'
miRNA:   3'- cGUUCCuuGGCGUCUCGGAGGCcUUC- -5'
20417 5' -55.5 NC_004688.1 + 4794 0.66 0.856898
Target:  5'- -aAAGGAucagGCCGgccaacucCAGGGCCUCCaGGAu- -3'
miRNA:   3'- cgUUCCU----UGGC--------GUCUCGGAGG-CCUuc -5'
20417 5' -55.5 NC_004688.1 + 10616 0.66 0.848857
Target:  5'- uCGAGGuGCCGguGAGgaUCUUCGGGAu -3'
miRNA:   3'- cGUUCCuUGGCguCUC--GGAGGCCUUc -5'
20417 5' -55.5 NC_004688.1 + 89800 0.67 0.832164
Target:  5'- aGCGAugucGGGGCCGC---GCCagCCGGGAGg -3'
miRNA:   3'- -CGUU----CCUUGGCGucuCGGa-GGCCUUC- -5'
20417 5' -55.5 NC_004688.1 + 61828 0.67 0.832164
Target:  5'- uGCGGcGGuaguuGCCGCGGGGCUcgUCGGAGc -3'
miRNA:   3'- -CGUU-CCu----UGGCGUCUCGGa-GGCCUUc -5'
20417 5' -55.5 NC_004688.1 + 84375 0.67 0.823527
Target:  5'- cGCGAaugcuGGucCCGUGGAGCUUCUGGGu- -3'
miRNA:   3'- -CGUU-----CCuuGGCGUCUCGGAGGCCUuc -5'
20417 5' -55.5 NC_004688.1 + 72823 0.67 0.805712
Target:  5'- uGCAuuGGGACCaGCAGAucuucuugGCCUCCGcGGc- -3'
miRNA:   3'- -CGUu-CCUUGG-CGUCU--------CGGAGGC-CUuc -5'
20417 5' -55.5 NC_004688.1 + 25066 0.68 0.777774
Target:  5'- cGCcGGGGACUGCccuGGAGCCgCCaucgcgacuggGGAAGg -3'
miRNA:   3'- -CGuUCCUUGGCG---UCUCGGaGG-----------CCUUC- -5'
20417 5' -55.5 NC_004688.1 + 101070 0.69 0.738652
Target:  5'- aGCu-GGAGcCCGUAGAGgUaCCGGAGGa -3'
miRNA:   3'- -CGuuCCUU-GGCGUCUCgGaGGCCUUC- -5'
20417 5' -55.5 NC_004688.1 + 32523 0.7 0.645879
Target:  5'- aCAAGGu-UUGCAGAaUCUCCGGAAGg -3'
miRNA:   3'- cGUUCCuuGGCGUCUcGGAGGCCUUC- -5'
20417 5' -55.5 NC_004688.1 + 54283 0.7 0.635391
Target:  5'- cCGGGGAACaC-CAGGGCgUCCGGAu- -3'
miRNA:   3'- cGUUCCUUG-GcGUCUCGgAGGCCUuc -5'
20417 5' -55.5 NC_004688.1 + 99291 0.7 0.635391
Target:  5'- uGCcaguGGGGGCgCGCAGcGCCaUCCGGAu- -3'
miRNA:   3'- -CGu---UCCUUG-GCGUCuCGG-AGGCCUuc -5'
20417 5' -55.5 NC_004688.1 + 25736 0.7 0.624899
Target:  5'- ---cGGGGCCGCcuugGGGGCCgCCGGAGc -3'
miRNA:   3'- cguuCCUUGGCG----UCUCGGaGGCCUUc -5'
20417 5' -55.5 NC_004688.1 + 41800 0.7 0.624899
Target:  5'- cCAGGuGACCGCguuGGGGuCCUCCGGGAu -3'
miRNA:   3'- cGUUCcUUGGCG---UCUC-GGAGGCCUUc -5'
20417 5' -55.5 NC_004688.1 + 87474 0.72 0.562351
Target:  5'- -aGGGuGGAgCGCAGAuaCUCCGGAAGg -3'
miRNA:   3'- cgUUC-CUUgGCGUCUcgGAGGCCUUC- -5'
20417 5' -55.5 NC_004688.1 + 24325 0.72 0.531668
Target:  5'- gGCAAcGGAACgucaUGCGGAGCC-CaCGGAGGa -3'
miRNA:   3'- -CGUU-CCUUG----GCGUCUCGGaG-GCCUUC- -5'
20417 5' -55.5 NC_004688.1 + 15594 0.74 0.443923
Target:  5'- uCGAGGAcauccgcaucGCCGCAGAaaaccGCCUCCGGu-- -3'
miRNA:   3'- cGUUCCU----------UGGCGUCU-----CGGAGGCCuuc -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.