miRNA display CGI


Results 1 - 20 of 36 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
12908 3' -55 NC_003387.1 + 6853 0.65 0.735703
Target:  5'- cGCGACCgcucaGGGCGccaacaAGACGccggUCGccGUCg -3'
miRNA:   3'- uCGCUGGa----CCCGU------UCUGCa---AGCa-CAG- -5'
12908 3' -55 NC_003387.1 + 10632 0.65 0.735703
Target:  5'- cGCGACCgcggcggugaaGGGUAcGGCGUUCGgccUCg -3'
miRNA:   3'- uCGCUGGa----------CCCGUuCUGCAAGCac-AG- -5'
12908 3' -55 NC_003387.1 + 29485 0.66 0.729319
Target:  5'- cGGCGGCCUccuccugcgcccggcGGGCGAGA---UCGagGUCg -3'
miRNA:   3'- -UCGCUGGA---------------CCCGUUCUgcaAGCa-CAG- -5'
12908 3' -55 NC_003387.1 + 11108 0.66 0.725043
Target:  5'- cGCGACC-GGGCuu-AUGggCGUGUUc -3'
miRNA:   3'- uCGCUGGaCCCGuucUGCaaGCACAG- -5'
12908 3' -55 NC_003387.1 + 20578 0.66 0.725043
Target:  5'- gGGCGugCaGGGCAccacauuucGGGCcuaucGUUCGcUGUCg -3'
miRNA:   3'- -UCGCugGaCCCGU---------UCUG-----CAAGC-ACAG- -5'
12908 3' -55 NC_003387.1 + 28544 0.66 0.725043
Target:  5'- cGGCGACaauUGGGCGaccgAGGCGgcgaUCGccGUCg -3'
miRNA:   3'- -UCGCUGg--ACCCGU----UCUGCa---AGCa-CAG- -5'
12908 3' -55 NC_003387.1 + 23958 0.66 0.723971
Target:  5'- cGGCGACaUGGGCcgcuuguGGGGCGUg-GUGUg -3'
miRNA:   3'- -UCGCUGgACCCG-------UUCUGCAagCACAg -5'
12908 3' -55 NC_003387.1 + 39272 0.66 0.714288
Target:  5'- cGGCGAgCUGGGCAAGcUGcUCGa--- -3'
miRNA:   3'- -UCGCUgGACCCGUUCuGCaAGCacag -5'
12908 3' -55 NC_003387.1 + 50985 0.66 0.703451
Target:  5'- uAGCGGCCggGGGCGuuuuCGUUUGcUGUg -3'
miRNA:   3'- -UCGCUGGa-CCCGUucu-GCAAGC-ACAg -5'
12908 3' -55 NC_003387.1 + 782 0.66 0.703451
Target:  5'- -uCGACCUGuGGCAGGACGaccUCGg--- -3'
miRNA:   3'- ucGCUGGAC-CCGUUCUGCa--AGCacag -5'
12908 3' -55 NC_003387.1 + 50185 0.66 0.703451
Target:  5'- cGUGACCaggcgcucgcGGGCcucGGCGaUCGUGUCg -3'
miRNA:   3'- uCGCUGGa---------CCCGuu-CUGCaAGCACAG- -5'
12908 3' -55 NC_003387.1 + 30136 0.66 0.702363
Target:  5'- cGGCGGCCgucaGGGCGcgcucguGGGCG---GUGUCg -3'
miRNA:   3'- -UCGCUGGa---CCCGU-------UCUGCaagCACAG- -5'
12908 3' -55 NC_003387.1 + 51232 0.66 0.692543
Target:  5'- cGCGGCCUGGuGCucGACG-UCGa--- -3'
miRNA:   3'- uCGCUGGACC-CGuuCUGCaAGCacag -5'
12908 3' -55 NC_003387.1 + 32967 0.66 0.681576
Target:  5'- cGGUGGCCgGGGCAGG-UGUU-GUcGUCg -3'
miRNA:   3'- -UCGCUGGaCCCGUUCuGCAAgCA-CAG- -5'
12908 3' -55 NC_003387.1 + 36525 0.67 0.670561
Target:  5'- uGCG-CCUGGGCGAGcUGcUCGcgcGUCa -3'
miRNA:   3'- uCGCuGGACCCGUUCuGCaAGCa--CAG- -5'
12908 3' -55 NC_003387.1 + 35500 0.67 0.648432
Target:  5'- aAGCGGCCguggUGGGCc-GACGcagaCGUGUUg -3'
miRNA:   3'- -UCGCUGG----ACCCGuuCUGCaa--GCACAG- -5'
12908 3' -55 NC_003387.1 + 17641 0.67 0.630681
Target:  5'- aGGCGAgCCUcggcccgaccgacaaGGGCAAGGCGUg-GUGg- -3'
miRNA:   3'- -UCGCU-GGA---------------CCCGUUCUGCAagCACag -5'
12908 3' -55 NC_003387.1 + 21756 0.68 0.615149
Target:  5'- aGGCGGCCaGGGCGucGGCGaacaCGUGcUCg -3'
miRNA:   3'- -UCGCUGGaCCCGUu-CUGCaa--GCAC-AG- -5'
12908 3' -55 NC_003387.1 + 38499 0.68 0.604072
Target:  5'- gAGCGGCCgUGGGCGugcgaGGGCGgcaaGUGa- -3'
miRNA:   3'- -UCGCUGG-ACCCGU-----UCUGCaag-CACag -5'
12908 3' -55 NC_003387.1 + 5468 0.68 0.582
Target:  5'- cGGUGACCaGGGCAAGACuUUCa---- -3'
miRNA:   3'- -UCGCUGGaCCCGUUCUGcAAGcacag -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.