miRNA display CGI


Results 1 - 20 of 65 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
33338 3' -56.5 NC_007605.1 + 2099 0.66 0.902895
Target:  5'- -gCCACUaGCagCAGGUucucagcaAUCAGgGGCCCc -3'
miRNA:   3'- uaGGUGA-CGa-GUCCA--------UGGUUgCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 2979 0.66 0.875944
Target:  5'- aGUUCAUggGCaCAGGgGCCGugcagACGGCCCu -3'
miRNA:   3'- -UAGGUGa-CGaGUCCaUGGU-----UGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 3386 0.67 0.861152
Target:  5'- -aCUGCUGCauucCAGGU-CCcgUGGCCCu -3'
miRNA:   3'- uaGGUGACGa---GUCCAuGGuuGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 4603 0.67 0.868653
Target:  5'- gGUCCAgaucaaaUGUUUgAGGUGCagcACGGCCCa -3'
miRNA:   3'- -UAGGUg------ACGAG-UCCAUGgu-UGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 9903 0.67 0.861152
Target:  5'- cUCCACa-CUCAGGUGCCAgguaaaGCaGCaCCa -3'
miRNA:   3'- uAGGUGacGAGUCCAUGGU------UGcCG-GG- -5'
33338 3' -56.5 NC_007605.1 + 10004 0.68 0.785215
Target:  5'- cUCCGcCUGCgCAGGUGCCAcaGGUUCc -3'
miRNA:   3'- uAGGU-GACGaGUCCAUGGUugCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 16944 0.66 0.875944
Target:  5'- -cCCAaaaguagagGCUCAGG--CCAGCGcGCCCu -3'
miRNA:   3'- uaGGUga-------CGAGUCCauGGUUGC-CGGG- -5'
33338 3' -56.5 NC_007605.1 + 36857 0.66 0.875944
Target:  5'- -aCCACUaCUCAcGGUACUAcaaaGGCCUa -3'
miRNA:   3'- uaGGUGAcGAGU-CCAUGGUug--CCGGG- -5'
33338 3' -56.5 NC_007605.1 + 40624 0.68 0.806798
Target:  5'- cGUCCAgacGCUCGGGgggugcacaccucCCAGcCGGCCCg -3'
miRNA:   3'- -UAGGUga-CGAGUCCau-----------GGUU-GCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 42023 0.68 0.803261
Target:  5'- -gCCGCUccCUCAGGUGuCCAcaGGCCCc -3'
miRNA:   3'- uaGGUGAc-GAGUCCAU-GGUugCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 48666 0.7 0.678122
Target:  5'- cAUCC-CgGCUCAGGcaggGCCcccCGGCCCc -3'
miRNA:   3'- -UAGGuGaCGAGUCCa---UGGuu-GCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 48931 0.68 0.803261
Target:  5'- cAUCCcCUGCUUGGGacccgACCGcacuugcauGCGGCCg -3'
miRNA:   3'- -UAGGuGACGAGUCCa----UGGU---------UGCCGGg -5'
33338 3' -56.5 NC_007605.1 + 53833 0.69 0.737865
Target:  5'- -gCCGCUGCcCGGG--CCAggGCGGCCUc -3'
miRNA:   3'- uaGGUGACGaGUCCauGGU--UGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 61500 0.69 0.728083
Target:  5'- cAUCCgaACUcCUCAGGUcucuGCUAugGGUCCg -3'
miRNA:   3'- -UAGG--UGAcGAGUCCA----UGGUugCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 68256 0.67 0.861152
Target:  5'- cGUUguCUGCUC-GGUAgCAGCGGaCUCg -3'
miRNA:   3'- -UAGguGACGAGuCCAUgGUUGCC-GGG- -5'
33338 3' -56.5 NC_007605.1 + 68452 0.74 0.472761
Target:  5'- aGUCCGCUGCUaccgagcagacaacgUGGGccUCAACGGCCCc -3'
miRNA:   3'- -UAGGUGACGA---------------GUCCauGGUUGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 68650 0.66 0.875944
Target:  5'- uAUCUuCUgGCUCAGaggccGUACUGGCGGCCg -3'
miRNA:   3'- -UAGGuGA-CGAGUC-----CAUGGUUGCCGGg -5'
33338 3' -56.5 NC_007605.1 + 69143 0.72 0.606823
Target:  5'- -aCCGCgUGCUuggCGGGUACCAgcguccagaggACGGCCa -3'
miRNA:   3'- uaGGUG-ACGA---GUCCAUGGU-----------UGCCGGg -5'
33338 3' -56.5 NC_007605.1 + 71801 0.69 0.732006
Target:  5'- -aCCuCUGuCUCAGGcACCGgaugcccccggcuccACGGCCCc -3'
miRNA:   3'- uaGGuGAC-GAGUCCaUGGU---------------UGCCGGG- -5'
33338 3' -56.5 NC_007605.1 + 73310 0.66 0.902895
Target:  5'- uUCCACUgGCcccggCAGGUgGCCuggcCGGCCa -3'
miRNA:   3'- uAGGUGA-CGa----GUCCA-UGGuu--GCCGGg -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.