miRNA display CGI


Results 1 - 20 of 88 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
31006 3' -58.3 NC_006560.1 + 122842 1.08 0.001878
Target:  5'- aAGCUGGCCGUCAAGACCAUCCGGGACc -3'
miRNA:   3'- -UCGACCGGCAGUUCUGGUAGGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 147000 0.78 0.218559
Target:  5'- cGGCUcgcGGCCG-CGGGGCCA-CCGGGGCc -3'
miRNA:   3'- -UCGA---CCGGCaGUUCUGGUaGGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 135994 0.75 0.332986
Target:  5'- uGGC-GGCCGggggCGGGACCGaggacggCCGGGGCg -3'
miRNA:   3'- -UCGaCCGGCa---GUUCUGGUa------GGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 116278 0.74 0.379813
Target:  5'- gAGCUGcGCCGUCAgauacucgaccgGGuCCGUCUGGaGGCg -3'
miRNA:   3'- -UCGAC-CGGCAGU------------UCuGGUAGGCC-CUG- -5'
31006 3' -58.3 NC_006560.1 + 87016 0.73 0.388034
Target:  5'- uGCUGGCCGUCGuAGAUgGUgCGGGu- -3'
miRNA:   3'- uCGACCGGCAGU-UCUGgUAgGCCCug -5'
31006 3' -58.3 NC_006560.1 + 15721 0.73 0.404823
Target:  5'- cGGCgGGCCGgcaCGGGGCCGgcacgCCGGGGg -3'
miRNA:   3'- -UCGaCCGGCa--GUUCUGGUa----GGCCCUg -5'
31006 3' -58.3 NC_006560.1 + 107966 0.73 0.430848
Target:  5'- uGGCgugGGCCGggGAGGgCGgcgCCGGGACg -3'
miRNA:   3'- -UCGa--CCGGCagUUCUgGUa--GGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 74589 0.72 0.439738
Target:  5'- cGGCcccGGCCGUCcuGGCCAcccUCCGGG-Cg -3'
miRNA:   3'- -UCGa--CCGGCAGuuCUGGU---AGGCCCuG- -5'
31006 3' -58.3 NC_006560.1 + 106427 0.72 0.448732
Target:  5'- cGGCUGGCCGcgGAGGCgGUCgCGGG-Cg -3'
miRNA:   3'- -UCGACCGGCagUUCUGgUAG-GCCCuG- -5'
31006 3' -58.3 NC_006560.1 + 126765 0.72 0.476306
Target:  5'- cGGCgaacgUGGCCGUCAGGcacACCAggaccCCGGGGg -3'
miRNA:   3'- -UCG-----ACCGGCAGUUC---UGGUa----GGCCCUg -5'
31006 3' -58.3 NC_006560.1 + 47641 0.72 0.485684
Target:  5'- --gUGGCCGUUcgcgggAGGACCGgggcCCGGGACc -3'
miRNA:   3'- ucgACCGGCAG------UUCUGGUa---GGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 146943 0.71 0.495149
Target:  5'- gGGCcugGGCCugcGUCAGGGCCGggggCCGGGcCu -3'
miRNA:   3'- -UCGa--CCGG---CAGUUCUGGUa---GGCCCuG- -5'
31006 3' -58.3 NC_006560.1 + 89302 0.71 0.495149
Target:  5'- uGCcGGCCGUucccggCGGGACCucagacggCCGGGGCg -3'
miRNA:   3'- uCGaCCGGCA------GUUCUGGua------GGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 27203 0.71 0.504696
Target:  5'- cGGCggGGCCGggaccgCGGGGCgGggCCGGGACc -3'
miRNA:   3'- -UCGa-CCGGCa-----GUUCUGgUa-GGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 83191 0.71 0.504696
Target:  5'- cGCggGGCUGcCGGGGCUGcCCGGGGCg -3'
miRNA:   3'- uCGa-CCGGCaGUUCUGGUaGGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 74874 0.71 0.524022
Target:  5'- cGCccgGGCCGUCuccGAGGCCAUcaacgCCGGcGGCg -3'
miRNA:   3'- uCGa--CCGGCAG---UUCUGGUA-----GGCC-CUG- -5'
31006 3' -58.3 NC_006560.1 + 131113 0.71 0.533791
Target:  5'- gAGCUGGCgGgggCcuGGCCcgcggCCGGGGCg -3'
miRNA:   3'- -UCGACCGgCa--GuuCUGGua---GGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 11474 0.71 0.543624
Target:  5'- cGCgUGGCCGUCAgcucguaccgggAGGCCucgggcgCCGGGGa -3'
miRNA:   3'- uCG-ACCGGCAGU------------UCUGGua-----GGCCCUg -5'
31006 3' -58.3 NC_006560.1 + 123459 0.7 0.553516
Target:  5'- cGGcCUGGCCGU--GGACCucuacgcgCUGGGGCa -3'
miRNA:   3'- -UC-GACCGGCAguUCUGGua------GGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 26934 0.7 0.553516
Target:  5'- gGGgaGGCCG-CGGGGCCGcggaggCCGGGGa -3'
miRNA:   3'- -UCgaCCGGCaGUUCUGGUa-----GGCCCUg -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.