miRNA display CGI


Results 1 - 20 of 82 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
31009 3' -55.6 NC_006560.1 + 35119 0.66 0.934537
Target:  5'- gUCC-GGGCCGGGGuccGCUCGGGagaGGc -3'
miRNA:   3'- gAGGcCCCGGUCUU---UGAGCUCgaaCC- -5'
31009 3' -55.6 NC_006560.1 + 102649 0.66 0.931521
Target:  5'- -gCgGGGGCCgcccagaagucggggGGGAACUCGGGggUGa -3'
miRNA:   3'- gaGgCCCCGG---------------UCUUUGAGCUCgaACc -5'
31009 3' -55.6 NC_006560.1 + 139719 0.66 0.929463
Target:  5'- --gCGGGGUCGGGGcggaucgcGCUCuGGGCgUGGg -3'
miRNA:   3'- gagGCCCCGGUCUU--------UGAG-CUCGaACC- -5'
31009 3' -55.6 NC_006560.1 + 81143 0.66 0.929463
Target:  5'- -cUCGGGGUgGaGGGugUCGGGCcggUGGa -3'
miRNA:   3'- gaGGCCCCGgU-CUUugAGCUCGa--ACC- -5'
31009 3' -55.6 NC_006560.1 + 78455 0.66 0.929463
Target:  5'- uCUCgGaGGGCUcGGAGCUgGAGCUg-- -3'
miRNA:   3'- -GAGgC-CCCGGuCUUUGAgCUCGAacc -5'
31009 3' -55.6 NC_006560.1 + 87059 0.66 0.924151
Target:  5'- -gCCGGgccacGGCCGaGAGCUCGAGg-UGGg -3'
miRNA:   3'- gaGGCC-----CCGGUcUUUGAGCUCgaACC- -5'
31009 3' -55.6 NC_006560.1 + 147020 0.66 0.924151
Target:  5'- -aCCGGGGCCacgGGggGCccCGAGaCggccgGGg -3'
miRNA:   3'- gaGGCCCCGG---UCuuUGa-GCUC-Gaa---CC- -5'
31009 3' -55.6 NC_006560.1 + 27205 0.66 0.924151
Target:  5'- --gCGGGGCCGGGAccGCg-GGGCggGGc -3'
miRNA:   3'- gagGCCCCGGUCUU--UGagCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 39027 0.66 0.924151
Target:  5'- gUCCGGGGCCGcGAACUgCGucccGCcgaagGGg -3'
miRNA:   3'- gAGGCCCCGGUcUUUGA-GCu---CGaa---CC- -5'
31009 3' -55.6 NC_006560.1 + 73594 0.66 0.924151
Target:  5'- -cCCGGGGCgaGGAGGCcCGGGCc--- -3'
miRNA:   3'- gaGGCCCCGg-UCUUUGaGCUCGaacc -5'
31009 3' -55.6 NC_006560.1 + 129047 0.66 0.924151
Target:  5'- cCUCCGGGcCCAGcgGCcccuccgCGAGCUgcgcGGc -3'
miRNA:   3'- -GAGGCCCcGGUCuuUGa------GCUCGAa---CC- -5'
31009 3' -55.6 NC_006560.1 + 146598 0.66 0.924151
Target:  5'- -cCCGaGGCCGGgcGCUugCGGGCcUGGg -3'
miRNA:   3'- gaGGCcCCGGUCuuUGA--GCUCGaACC- -5'
31009 3' -55.6 NC_006560.1 + 145080 0.66 0.918601
Target:  5'- --gCGGGGCCGGGccuCcCGAGCcccUGGg -3'
miRNA:   3'- gagGCCCCGGUCUuu-GaGCUCGa--ACC- -5'
31009 3' -55.6 NC_006560.1 + 19553 0.66 0.918601
Target:  5'- cCUCCGGcGGCCccccGGAGGCggcacCGGGCg--- -3'
miRNA:   3'- -GAGGCC-CCGG----UCUUUGa----GCUCGaacc -5'
31009 3' -55.6 NC_006560.1 + 36120 0.66 0.918601
Target:  5'- -aCCGGGGCCGccgccgccGggG-UCGAGCcgGGc -3'
miRNA:   3'- gaGGCCCCGGU--------CuuUgAGCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 5462 0.66 0.912813
Target:  5'- -cCCGGGGgCGccGggGCUcCGAGCgcGGu -3'
miRNA:   3'- gaGGCCCCgGU--CuuUGA-GCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 17472 0.66 0.912813
Target:  5'- cCUCCGGGgugaguccGCCGGGggggguggGGCUgGAGCgcgcgGGg -3'
miRNA:   3'- -GAGGCCC--------CGGUCU--------UUGAgCUCGaa---CC- -5'
31009 3' -55.6 NC_006560.1 + 58424 0.66 0.911031
Target:  5'- gCUCCGGGGguCCAgcaggaacacggccGAGAC-CGAGUUcGGg -3'
miRNA:   3'- -GAGGCCCC--GGU--------------CUUUGaGCUCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 58488 0.66 0.906789
Target:  5'- -cUCGGGGUCGGAAagccgaagaagaACUUGAGCg--- -3'
miRNA:   3'- gaGGCCCCGGUCUU------------UGAGCUCGaacc -5'
31009 3' -55.6 NC_006560.1 + 50261 0.66 0.906789
Target:  5'- cCUCCGGgcGGCCGG--GCUCGGcGCgcccccgGGg -3'
miRNA:   3'- -GAGGCC--CCGGUCuuUGAGCU-CGaa-----CC- -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.