miRNA display CGI


Results 1 - 15 of 15 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
23029 3' -63.7 NC_005178.1 + 8970 1.06 0.000114
Target:  5'- gAAGCCGGGCCGAUCCUGCUGGCCCAGg -3'
miRNA:   3'- -UUCGGCCCGGCUAGGACGACCGGGUC- -5'
23029 3' -63.7 NC_005178.1 + 16717 0.8 0.015096
Target:  5'- uGAGCCGGcGCCcuGGUCCUcgcaucgcugcGCUGGCCCAGg -3'
miRNA:   3'- -UUCGGCC-CGG--CUAGGA-----------CGACCGGGUC- -5'
23029 3' -63.7 NC_005178.1 + 17268 0.68 0.138448
Target:  5'- --cCUGcGGCCGAUCCUGgaGGCCaaaGGc -3'
miRNA:   3'- uucGGC-CCGGCUAGGACgaCCGGg--UC- -5'
23029 3' -63.7 NC_005178.1 + 26895 0.68 0.142301
Target:  5'- cAGCCcaacGGGCCGAagacagCCccGCUGGCCaCAGc -3'
miRNA:   3'- uUCGG----CCCGGCUa-----GGa-CGACCGG-GUC- -5'
23029 3' -63.7 NC_005178.1 + 16046 0.67 0.158713
Target:  5'- uAG-CGGGCUGuUCCgcgUGCUGGCCUGGc -3'
miRNA:   3'- uUCgGCCCGGCuAGG---ACGACCGGGUC- -5'
23029 3' -63.7 NC_005178.1 + 9449 0.67 0.163075
Target:  5'- uAGCCGGGaCGGUCUgccggacgUGgUGGUCCGGu -3'
miRNA:   3'- uUCGGCCCgGCUAGG--------ACgACCGGGUC- -5'
23029 3' -63.7 NC_005178.1 + 25457 0.67 0.163075
Target:  5'- --uCCGGGCCG--CCUGCUGGUCg-- -3'
miRNA:   3'- uucGGCCCGGCuaGGACGACCGGguc -5'
23029 3' -63.7 NC_005178.1 + 10933 0.67 0.172124
Target:  5'- -cGCCGaGUCGAUCCgGCgcGGCCCGc -3'
miRNA:   3'- uuCGGCcCGGCUAGGaCGa-CCGGGUc -5'
23029 3' -63.7 NC_005178.1 + 36040 0.67 0.181619
Target:  5'- gGGGCCGGGgCGAaCCagaaccGCuUGGCCCGc -3'
miRNA:   3'- -UUCGGCCCgGCUaGGa-----CG-ACCGGGUc -5'
23029 3' -63.7 NC_005178.1 + 16801 0.67 0.186538
Target:  5'- -uGCU-GGCCag-CCUGCcGGCCCAGg -3'
miRNA:   3'- uuCGGcCCGGcuaGGACGaCCGGGUC- -5'
23029 3' -63.7 NC_005178.1 + 11785 0.66 0.202005
Target:  5'- -cGCCGcaGGCCGG-CCUGCacaUGGaCCAGg -3'
miRNA:   3'- uuCGGC--CCGGCUaGGACG---ACCgGGUC- -5'
23029 3' -63.7 NC_005178.1 + 23744 0.66 0.202005
Target:  5'- -cGCCGaaGCCGAguUCCUGCUGcGCCg-- -3'
miRNA:   3'- uuCGGCc-CGGCU--AGGACGAC-CGGguc -5'
23029 3' -63.7 NC_005178.1 + 11393 0.66 0.207403
Target:  5'- cAGCa-GGCCGA-CC-GCUGGCuCCAGu -3'
miRNA:   3'- uUCGgcCCGGCUaGGaCGACCG-GGUC- -5'
23029 3' -63.7 NC_005178.1 + 35669 0.66 0.211256
Target:  5'- -cGCCGGccucacauccagcaGuuGGUCCUauccGCUGGCCgAGg -3'
miRNA:   3'- uuCGGCC--------------CggCUAGGA----CGACCGGgUC- -5'
23029 3' -63.7 NC_005178.1 + 10326 0.66 0.216867
Target:  5'- aGGGCCGGGCgcggaggggcgaagCGcgCCgggcugcGCUGGCCgAGc -3'
miRNA:   3'- -UUCGGCCCG--------------GCuaGGa------CGACCGGgUC- -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.