miRNA display CGI


Results 1 - 20 of 25 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
9777 3' -57.3 NC_002577.1 + 127701 0.66 0.855935
Target:  5'- -cUCCcCUCUucCUCCCuucCCCCUCCc -3'
miRNA:   3'- uaAGGaGAGAu-GAGGGccaGGGGAGG- -5'
9777 3' -57.3 NC_002577.1 + 5913 0.66 0.855935
Target:  5'- -cUCCcCUCUucCUCCCuucCCCCUCCc -3'
miRNA:   3'- uaAGGaGAGAu-GAGGGccaGGGGAGG- -5'
9777 3' -57.3 NC_002577.1 + 30996 0.67 0.84818
Target:  5'- -cUCCUCUCcggGCUCCuuccgaucgCGGUCCUUUUg -3'
miRNA:   3'- uaAGGAGAGa--UGAGG---------GCCAGGGGAGg -5'
9777 3' -57.3 NC_002577.1 + 104662 0.67 0.815323
Target:  5'- -aUCCUCaugacCgccgGCUCUCGGUCCUCgCCu -3'
miRNA:   3'- uaAGGAGa----Ga---UGAGGGCCAGGGGaGG- -5'
9777 3' -57.3 NC_002577.1 + 141613 0.68 0.779883
Target:  5'- -cUCCUUcCgcGCUCCCugcgcuGGUCCCCaUCCg -3'
miRNA:   3'- uaAGGAGaGa-UGAGGG------CCAGGGG-AGG- -5'
9777 3' -57.3 NC_002577.1 + 155724 0.68 0.779883
Target:  5'- -cUCCUUcCgcGCUCCCugcgcuGGUCCCCaUCCg -3'
miRNA:   3'- uaAGGAGaGa-UGAGGG------CCAGGGG-AGG- -5'
9777 3' -57.3 NC_002577.1 + 140217 0.68 0.77068
Target:  5'- -cUCCUCgcguugUCggacGCUCgCCGGUgCCCUUCCu -3'
miRNA:   3'- uaAGGAG------AGa---UGAG-GGCCA-GGGGAGG- -5'
9777 3' -57.3 NC_002577.1 + 157121 0.68 0.77068
Target:  5'- -cUCCUCgcguugUCggacGCUCgCCGGUgCCCUUCCu -3'
miRNA:   3'- uaAGGAG------AGa---UGAG-GGCCA-GGGGAGG- -5'
9777 3' -57.3 NC_002577.1 + 141866 0.68 0.761357
Target:  5'- uGUUUCUCUC-GCUCCCGacGUUCCUaCCg -3'
miRNA:   3'- -UAAGGAGAGaUGAGGGC--CAGGGGaGG- -5'
9777 3' -57.3 NC_002577.1 + 155471 0.68 0.761357
Target:  5'- uGUUUCUCUC-GCUCCCGacGUUCCUaCCg -3'
miRNA:   3'- -UAAGGAGAGaUGAGGGC--CAGGGGaGG- -5'
9777 3' -57.3 NC_002577.1 + 90107 0.68 0.760418
Target:  5'- ---aCUCUCUACUgauaacaCUCGGUCCauuCUCCg -3'
miRNA:   3'- uaagGAGAGAUGA-------GGGCCAGGg--GAGG- -5'
9777 3' -57.3 NC_002577.1 + 104675 0.68 0.758537
Target:  5'- --gCCUUacgagcgggucguaUCUGCUUacaCGGUCCCUUCCc -3'
miRNA:   3'- uaaGGAG--------------AGAUGAGg--GCCAGGGGAGG- -5'
9777 3' -57.3 NC_002577.1 + 106909 0.69 0.742385
Target:  5'- ----aUCUCgACUcCCCGGUCCCauuCUCCg -3'
miRNA:   3'- uaaggAGAGaUGA-GGGCCAGGG---GAGG- -5'
9777 3' -57.3 NC_002577.1 + 6018 0.69 0.703388
Target:  5'- cUUCCcCUCUuCUCCCcccCCCCUCCc -3'
miRNA:   3'- uAAGGaGAGAuGAGGGccaGGGGAGG- -5'
9777 3' -57.3 NC_002577.1 + 127595 0.69 0.703388
Target:  5'- cUUCCcCUCUuCUCCCcccCCCCUCCc -3'
miRNA:   3'- uAAGGaGAGAuGAGGGccaGGGGAGG- -5'
9777 3' -57.3 NC_002577.1 + 11916 0.72 0.57291
Target:  5'- -gUUCUCUCcgGCgUCCgGGUcgcCCCCUCCg -3'
miRNA:   3'- uaAGGAGAGa-UG-AGGgCCA---GGGGAGG- -5'
9777 3' -57.3 NC_002577.1 + 121698 0.72 0.57291
Target:  5'- -gUUCUCUCcgGCgUCCgGGUcgcCCCCUCCg -3'
miRNA:   3'- uaAGGAGAGa-UG-AGGgCCA---GGGGAGG- -5'
9777 3' -57.3 NC_002577.1 + 161887 0.72 0.533428
Target:  5'- -aUCCUC-CgacGCUgCCCGGUCCuCCUUCg -3'
miRNA:   3'- uaAGGAGaGa--UGA-GGGCCAGG-GGAGG- -5'
9777 3' -57.3 NC_002577.1 + 135450 0.72 0.533428
Target:  5'- -aUCCUC-CgacGCUgCCCGGUCCuCCUUCg -3'
miRNA:   3'- uaAGGAGaGa--UGA-GGGCCAGG-GGAGG- -5'
9777 3' -57.3 NC_002577.1 + 132651 0.72 0.523702
Target:  5'- -aUCgUCgugcGCUCCCGGUCCUCUCg -3'
miRNA:   3'- uaAGgAGaga-UGAGGGCCAGGGGAGg -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.