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
27412 3' -57.7 NC_005869.1 + 7854 0.66 0.464605
Target:  5'- gGCgGGCUCUG-GACGGccaccaCCUGCagCGCg -3'
miRNA:   3'- gUG-UCGAGGCuCUGCCa-----GGACGa-GCG- -5'
27412 3' -57.7 NC_005869.1 + 16519 0.66 0.464605
Target:  5'- gGCGGCgacgCCGAGGCGcUCUggggGCgcgaggCGCa -3'
miRNA:   3'- gUGUCGa---GGCUCUGCcAGGa---CGa-----GCG- -5'
27412 3' -57.7 NC_005869.1 + 9892 0.66 0.464605
Target:  5'- -uCGGUUUCG-GugGGcUCCUGCUgcCGCu -3'
miRNA:   3'- guGUCGAGGCuCugCC-AGGACGA--GCG- -5'
27412 3' -57.7 NC_005869.1 + 17597 0.66 0.444497
Target:  5'- -uCGGCUgCCGAGGCGGcCCaucgUGCU-GCc -3'
miRNA:   3'- guGUCGA-GGCUCUGCCaGG----ACGAgCG- -5'
27412 3' -57.7 NC_005869.1 + 9000 0.66 0.434628
Target:  5'- gGCGGCg--GuGACGGUCUUGCgcCGCu -3'
miRNA:   3'- gUGUCGaggCuCUGCCAGGACGa-GCG- -5'
27412 3' -57.7 NC_005869.1 + 27504 0.66 0.424887
Target:  5'- -cCAGCUCgGAGGCGGaggCC-GCUCc- -3'
miRNA:   3'- guGUCGAGgCUCUGCCa--GGaCGAGcg -5'
27412 3' -57.7 NC_005869.1 + 189 0.67 0.405803
Target:  5'- uGgAGCcCUGGGGCGGUCCU-C-CGCg -3'
miRNA:   3'- gUgUCGaGGCUCUGCCAGGAcGaGCG- -5'
27412 3' -57.7 NC_005869.1 + 23377 0.67 0.405803
Target:  5'- uGCAGCcccUCCGAGccgcuGCGGUgCUGCcagaucaCGCa -3'
miRNA:   3'- gUGUCG---AGGCUC-----UGCCAgGACGa------GCG- -5'
27412 3' -57.7 NC_005869.1 + 26385 0.67 0.405803
Target:  5'- gGCAGCUCCGaAGGCaGU-UUGCUCa- -3'
miRNA:   3'- gUGUCGAGGC-UCUGcCAgGACGAGcg -5'
27412 3' -57.7 NC_005869.1 + 5448 0.67 0.396465
Target:  5'- gGCAGCggCGGGgcGCGGuUCCUGCUgGg -3'
miRNA:   3'- gUGUCGagGCUC--UGCC-AGGACGAgCg -5'
27412 3' -57.7 NC_005869.1 + 16579 0.67 0.387266
Target:  5'- -cUAGCcCCGcGGCGGUCCaGCcggCGCa -3'
miRNA:   3'- guGUCGaGGCuCUGCCAGGaCGa--GCG- -5'
27412 3' -57.7 NC_005869.1 + 17691 0.67 0.369296
Target:  5'- gACGGCcacagCCGGGACGGugucUCCUGaCUCc- -3'
miRNA:   3'- gUGUCGa----GGCUCUGCC----AGGAC-GAGcg -5'
27412 3' -57.7 NC_005869.1 + 30399 0.67 0.369296
Target:  5'- cCGCAGCUCCGccaGCG--CCUGC-CGCa -3'
miRNA:   3'- -GUGUCGAGGCuc-UGCcaGGACGaGCG- -5'
27412 3' -57.7 NC_005869.1 + 21043 0.67 0.369296
Target:  5'- cCGCAGCa-UGAGGCGGcCCUcCUCGUc -3'
miRNA:   3'- -GUGUCGagGCUCUGCCaGGAcGAGCG- -5'
27412 3' -57.7 NC_005869.1 + 28368 0.67 0.36665
Target:  5'- uGCAGCgccagaugugguccUCCGAGGCcGUCCUGCg--- -3'
miRNA:   3'- gUGUCG--------------AGGCUCUGcCAGGACGagcg -5'
27412 3' -57.7 NC_005869.1 + 9635 0.68 0.351905
Target:  5'- cCGCGGCUgcgCCgGGGGCGGccUCCUGCaggaccuggCGCa -3'
miRNA:   3'- -GUGUCGA---GG-CUCUGCC--AGGACGa--------GCG- -5'
27412 3' -57.7 NC_005869.1 + 20731 0.68 0.351905
Target:  5'- gGCGGCggCCGGcGGCGGcgCCugggUGCUCGUu -3'
miRNA:   3'- gUGUCGa-GGCU-CUGCCa-GG----ACGAGCG- -5'
27412 3' -57.7 NC_005869.1 + 26657 0.68 0.335103
Target:  5'- gUACuGCgCCgGAGACGGagCCUGCgugCGCc -3'
miRNA:   3'- -GUGuCGaGG-CUCUGCCa-GGACGa--GCG- -5'
27412 3' -57.7 NC_005869.1 + 27991 0.68 0.326925
Target:  5'- aCGCGGaCUCCGGuGACGaGgCCUGCgaaGCa -3'
miRNA:   3'- -GUGUC-GAGGCU-CUGC-CaGGACGag-CG- -5'
27412 3' -57.7 NC_005869.1 + 6649 0.74 0.142913
Target:  5'- uCGgGGCcgUCGAGGCGGUCCUGC-CaGCg -3'
miRNA:   3'- -GUgUCGa-GGCUCUGCCAGGACGaG-CG- -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.