miRNA display CGI


Results 1 - 20 of 20 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
9875 5' -52.5 NC_002641.1 + 31589 0.66 0.984376
Target:  5'- -gGGAUGuGGGACUguuggacaugcauGCCUAUguaaaGGUCCa -3'
miRNA:   3'- agCCUACuCCUUGG-------------CGGGUAa----CUAGG- -5'
9875 5' -52.5 NC_002641.1 + 143545 0.66 0.980593
Target:  5'- gCGGAgUGGGGGAaCGCCCcccaGUCCu -3'
miRNA:   3'- aGCCU-ACUCCUUgGCGGGuaacUAGG- -5'
9875 5' -52.5 NC_002641.1 + 106888 0.66 0.979716
Target:  5'- aUCGGAUGuccaucuugaagcGGAuUCGUCCAuUUGAUCUa -3'
miRNA:   3'- -AGCCUACu------------CCUuGGCGGGU-AACUAGG- -5'
9875 5' -52.5 NC_002641.1 + 124838 0.67 0.973284
Target:  5'- uUCGGAUGGGaAGCC-CCCA---AUCCc -3'
miRNA:   3'- -AGCCUACUCcUUGGcGGGUaacUAGG- -5'
9875 5' -52.5 NC_002641.1 + 157635 0.67 0.973284
Target:  5'- uUCGGAUGGGaAGCC-CCCA---AUCCc -3'
miRNA:   3'- -AGCCUACUCcUUGGcGGGUaacUAGG- -5'
9875 5' -52.5 NC_002641.1 + 5375 0.68 0.964164
Target:  5'- cCGuc--GGGAACCGCCaCAUUGAccggUCCg -3'
miRNA:   3'- aGCcuacUCCUUGGCGG-GUAACU----AGG- -5'
9875 5' -52.5 NC_002641.1 + 118347 0.68 0.964164
Target:  5'- cCGuc--GGGAACCGCCaCAUUGAccggUCCg -3'
miRNA:   3'- aGCcuacUCCUUGGCGG-GUAACU----AGG- -5'
9875 5' -52.5 NC_002641.1 + 128154 0.68 0.956991
Target:  5'- gUGGAUGcGGAGaCgGCCCGUccGAUUCg -3'
miRNA:   3'- aGCCUACuCCUU-GgCGGGUAa-CUAGG- -5'
9875 5' -52.5 NC_002641.1 + 154318 0.68 0.956991
Target:  5'- gUGGAUGcGGAGaCgGCCCGUccGAUUCg -3'
miRNA:   3'- aGCCUACuCCUU-GgCGGGUAa-CUAGG- -5'
9875 5' -52.5 NC_002641.1 + 125811 0.68 0.953061
Target:  5'- -aGGAUGcGGAacuACCGUCUuuacgGAUCCg -3'
miRNA:   3'- agCCUACuCCU---UGGCGGGuaa--CUAGG- -5'
9875 5' -52.5 NC_002641.1 + 156661 0.68 0.953061
Target:  5'- -aGGAUGcGGAacuACCGUCUuuacgGAUCCg -3'
miRNA:   3'- agCCUACuCCU---UGGCGGGuaa--CUAGG- -5'
9875 5' -52.5 NC_002641.1 + 135447 0.68 0.948897
Target:  5'- gCGGggGAGGGacacuauggaagGCCGCCaCAcgGGUCa -3'
miRNA:   3'- aGCCuaCUCCU------------UGGCGG-GUaaCUAGg -5'
9875 5' -52.5 NC_002641.1 + 147025 0.68 0.948897
Target:  5'- gCGGggGAGGGacacuauggaagGCCGCCaCAcgGGUCa -3'
miRNA:   3'- aGCCuaCUCCU------------UGGCGG-GUaaCUAGg -5'
9875 5' -52.5 NC_002641.1 + 105194 0.68 0.948467
Target:  5'- -aGGAUGAcaucucuGGAGCCGCCac-UGAUUa -3'
miRNA:   3'- agCCUACU-------CCUUGGCGGguaACUAGg -5'
9875 5' -52.5 NC_002641.1 + 127899 0.69 0.93985
Target:  5'- aCGGgcGuaGGGAACCGUUCAguaUUGAUUCg -3'
miRNA:   3'- aGCCuaC--UCCUUGGCGGGU---AACUAGG- -5'
9875 5' -52.5 NC_002641.1 + 154573 0.69 0.93985
Target:  5'- aCGGgcGuaGGGAACCGUUCAguaUUGAUUCg -3'
miRNA:   3'- aGCCuaC--UCCUUGGCGGGU---AACUAGG- -5'
9875 5' -52.5 NC_002641.1 + 73393 0.69 0.929831
Target:  5'- aUGGuagcaAUGGGGggUCGCCUAUaGGUUCg -3'
miRNA:   3'- aGCC-----UACUCCuuGGCGGGUAaCUAGG- -5'
9875 5' -52.5 NC_002641.1 + 9796 0.7 0.900503
Target:  5'- cUCGGGaGGcGGAACCGCCCAaccagCCc -3'
miRNA:   3'- -AGCCUaCU-CCUUGGCGGGUaacuaGG- -5'
9875 5' -52.5 NC_002641.1 + 59027 0.75 0.659777
Target:  5'- cUUGGAUcGGGAACgGCCacauGUUGAUCCu -3'
miRNA:   3'- -AGCCUAcUCCUUGgCGGg---UAACUAGG- -5'
9875 5' -52.5 NC_002641.1 + 38640 1.12 0.00467
Target:  5'- cUCGGAUGAGGAACCGCCCAUUGAUCCc -3'
miRNA:   3'- -AGCCUACUCCUUGGCGGGUAACUAGG- -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.