miRNA display CGI


Results 1 - 20 of 34 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
16232 3' -56.9 NC_004065.1 + 107796 0.66 0.933304
Target:  5'- cGGAuACUUGGCCgUGGGcgaGCGGGc- -3'
miRNA:   3'- -UCUuUGAACCGG-GCCCuggCGCCUuu -5'
16232 3' -56.9 NC_004065.1 + 29584 0.66 0.933304
Target:  5'- --uGACggcGGCCgCGGuGACCGCGGu-- -3'
miRNA:   3'- ucuUUGaa-CCGG-GCC-CUGGCGCCuuu -5'
16232 3' -56.9 NC_004065.1 + 121602 0.66 0.932812
Target:  5'- gAGGAAUUUGGUCUcguaGGGGCCGaaaucuacagucaCGGGGAc -3'
miRNA:   3'- -UCUUUGAACCGGG----CCCUGGC-------------GCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 188897 0.66 0.928281
Target:  5'- gAGAAGCUcacGGCCCGacGACC-CGGAc- -3'
miRNA:   3'- -UCUUUGAa--CCGGGCc-CUGGcGCCUuu -5'
16232 3' -56.9 NC_004065.1 + 40899 0.66 0.928281
Target:  5'- --uAugUUGGUCCGGG-CCaCGGGGAg -3'
miRNA:   3'- ucuUugAACCGGGCCCuGGcGCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 156865 0.66 0.923029
Target:  5'- gAGGGAC-UGGUCgGGGACCGaauccUGGGGu -3'
miRNA:   3'- -UCUUUGaACCGGgCCCUGGC-----GCCUUu -5'
16232 3' -56.9 NC_004065.1 + 192074 0.66 0.923029
Target:  5'- cAGGAACUguccGCCCGGGAUguucgagaCGCGaGGGAc -3'
miRNA:   3'- -UCUUUGAac--CGGGCCCUG--------GCGC-CUUU- -5'
16232 3' -56.9 NC_004065.1 + 225122 0.66 0.911843
Target:  5'- aGGAAGaucuugaugGGCUCGGGA-CGCGGAc- -3'
miRNA:   3'- -UCUUUgaa------CCGGGCCCUgGCGCCUuu -5'
16232 3' -56.9 NC_004065.1 + 74825 0.66 0.911843
Target:  5'- uGGAGACgcccGGgUCGGGACCGaGGGGc -3'
miRNA:   3'- -UCUUUGaa--CCgGGCCCUGGCgCCUUu -5'
16232 3' -56.9 NC_004065.1 + 184193 0.66 0.90591
Target:  5'- cGGGGAUUUGGCCCGGuACUuuaauauggGUGGGGu -3'
miRNA:   3'- -UCUUUGAACCGGGCCcUGG---------CGCCUUu -5'
16232 3' -56.9 NC_004065.1 + 98249 0.66 0.90591
Target:  5'- --cGACgacGGCUCGGGACgGCGGc-- -3'
miRNA:   3'- ucuUUGaa-CCGGGCCCUGgCGCCuuu -5'
16232 3' -56.9 NC_004065.1 + 116422 0.66 0.90591
Target:  5'- ----cCUUGGC--GGGACCGCGGGc- -3'
miRNA:   3'- ucuuuGAACCGggCCCUGGCGCCUuu -5'
16232 3' -56.9 NC_004065.1 + 99857 0.67 0.899753
Target:  5'- cAGA----UGGCgCCGGGGUCGCGGAu- -3'
miRNA:   3'- -UCUuugaACCG-GGCCCUGGCGCCUuu -5'
16232 3' -56.9 NC_004065.1 + 127204 0.67 0.899125
Target:  5'- cGGGGACgUGGUUCGGGagcggcgGCCGCGaGGAu -3'
miRNA:   3'- -UCUUUGaACCGGGCCC-------UGGCGC-CUUu -5'
16232 3' -56.9 NC_004065.1 + 136412 0.67 0.893375
Target:  5'- gGGGAGCUgguccugggGGCCCGGuGAgCCgaggucgguagGCGGGAAg -3'
miRNA:   3'- -UCUUUGAa--------CCGGGCC-CU-GG-----------CGCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 195778 0.67 0.892725
Target:  5'- cGAAACgcaGGUcgcgucuCUGGGcGCCGCGGAGAg -3'
miRNA:   3'- uCUUUGaa-CCG-------GGCCC-UGGCGCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 184903 0.67 0.886778
Target:  5'- cGGGAGCgggcgcccgggUGGCUCGGGAgCGgcCGGGAGa -3'
miRNA:   3'- -UCUUUGa----------ACCGGGCCCUgGC--GCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 119585 0.67 0.884757
Target:  5'- uGAAACggcUGGCCUGGacgugcaggacgccGGCgGCGGAGGa -3'
miRNA:   3'- uCUUUGa--ACCGGGCC--------------CUGgCGCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 201282 0.67 0.879967
Target:  5'- uGGAGuACuUUGGCCCuccGGcGGCCGgGGGAGg -3'
miRNA:   3'- -UCUU-UG-AACCGGG---CC-CUGGCgCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 111535 0.67 0.872945
Target:  5'- cGguACUcGGCCCGGGACgGCa---- -3'
miRNA:   3'- uCuuUGAaCCGGGCCCUGgCGccuuu -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.