miRNA display CGI


Results 1 - 20 of 21 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
26334 3' -56.7 NC_005345.2 + 39872 0.66 0.608731
Target:  5'- aUCCUGACCGa-GUUC-GCcaCGUGGCa -3'
miRNA:   3'- gAGGACUGGUgcCGAGuCGa-GUACCG- -5'
26334 3' -56.7 NC_005345.2 + 34968 0.66 0.597714
Target:  5'- gCUCaa-GCCGgGGUUCgacgGGCUCAUGGUc -3'
miRNA:   3'- -GAGgacUGGUgCCGAG----UCGAGUACCG- -5'
26334 3' -56.7 NC_005345.2 + 30403 0.66 0.586727
Target:  5'- -aCCUcGACgACGcGUcCGcGCUCAUGGCg -3'
miRNA:   3'- gaGGA-CUGgUGC-CGaGU-CGAGUACCG- -5'
26334 3' -56.7 NC_005345.2 + 33660 0.66 0.575778
Target:  5'- -gCCcGACuUGCGGCgCAGCUCG-GGCu -3'
miRNA:   3'- gaGGaCUG-GUGCCGaGUCGAGUaCCG- -5'
26334 3' -56.7 NC_005345.2 + 25215 0.66 0.564875
Target:  5'- -cUCUGACCgaguGCGaGCUCacgcacgacGGCUCGUcGGCg -3'
miRNA:   3'- gaGGACUGG----UGC-CGAG---------UCGAGUA-CCG- -5'
26334 3' -56.7 NC_005345.2 + 22126 0.67 0.511334
Target:  5'- -gCCgGACCcaccGCGG-UCGGCUCGUGaGCu -3'
miRNA:   3'- gaGGaCUGG----UGCCgAGUCGAGUAC-CG- -5'
26334 3' -56.7 NC_005345.2 + 31178 0.68 0.490499
Target:  5'- aUCgaGGCCGCGGCcCGGCagGcGGCc -3'
miRNA:   3'- gAGgaCUGGUGCCGaGUCGagUaCCG- -5'
26334 3' -56.7 NC_005345.2 + 29077 0.68 0.490499
Target:  5'- -gCCgaGACCGCGaGCUaccGCUCGUGGg -3'
miRNA:   3'- gaGGa-CUGGUGC-CGAgu-CGAGUACCg -5'
26334 3' -56.7 NC_005345.2 + 42544 0.68 0.481252
Target:  5'- uCUCCUcGACgACGGcCUCGGCgucgauaucgccgcgCGUGGg -3'
miRNA:   3'- -GAGGA-CUGgUGCC-GAGUCGa--------------GUACCg -5'
26334 3' -56.7 NC_005345.2 + 1113 0.68 0.48023
Target:  5'- gCUCgaUGugCGCGGCcCAGUUCGaccgcuuccgguUGGCg -3'
miRNA:   3'- -GAGg-ACugGUGCCGaGUCGAGU------------ACCG- -5'
26334 3' -56.7 NC_005345.2 + 571 0.68 0.48023
Target:  5'- gUCCUGACC-CGGCaCAaCUUccGGCg -3'
miRNA:   3'- gAGGACUGGuGCCGaGUcGAGuaCCG- -5'
26334 3' -56.7 NC_005345.2 + 8004 0.68 0.470067
Target:  5'- -aCCggcGGCCGCGGUUUcacgAGCUCGacgGGCu -3'
miRNA:   3'- gaGGa--CUGGUGCCGAG----UCGAGUa--CCG- -5'
26334 3' -56.7 NC_005345.2 + 14919 0.68 0.470067
Target:  5'- ----gGGCCGCGGCgcggCGGCUgCAgcgGGCg -3'
miRNA:   3'- gaggaCUGGUGCCGa---GUCGA-GUa--CCG- -5'
26334 3' -56.7 NC_005345.2 + 32948 0.68 0.450078
Target:  5'- cCUCCUGACggagCACGGCgaggCAG-UCGaGGCc -3'
miRNA:   3'- -GAGGACUG----GUGCCGa---GUCgAGUaCCG- -5'
26334 3' -56.7 NC_005345.2 + 23534 0.69 0.420997
Target:  5'- -cCCUGAuUCAC-GCUCGGCU-GUGGCg -3'
miRNA:   3'- gaGGACU-GGUGcCGAGUCGAgUACCG- -5'
26334 3' -56.7 NC_005345.2 + 19851 0.69 0.411558
Target:  5'- -gCCgaGCCACGGCUCGGUgUCGUacGGCu -3'
miRNA:   3'- gaGGacUGGUGCCGAGUCG-AGUA--CCG- -5'
26334 3' -56.7 NC_005345.2 + 17623 0.69 0.39308
Target:  5'- uCUUCUGGCCAauGCgCAGCUC--GGCu -3'
miRNA:   3'- -GAGGACUGGUgcCGaGUCGAGuaCCG- -5'
26334 3' -56.7 NC_005345.2 + 33460 0.71 0.294062
Target:  5'- -aCCUcGACCGCGGCUgUAGC-CAUGuGCc -3'
miRNA:   3'- gaGGA-CUGGUGCCGA-GUCGaGUAC-CG- -5'
26334 3' -56.7 NC_005345.2 + 48026 0.73 0.252333
Target:  5'- gCUCCggggaGGCUacGCGGCUguGCUCGUccGGCg -3'
miRNA:   3'- -GAGGa----CUGG--UGCCGAguCGAGUA--CCG- -5'
26334 3' -56.7 NC_005345.2 + 18700 0.77 0.121227
Target:  5'- uUCCUGAUCGCGG-UCGGCgucgucaucgCAUGGCg -3'
miRNA:   3'- gAGGACUGGUGCCgAGUCGa---------GUACCG- -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.