miRNA display CGI


Results 1 - 20 of 29 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
23025 3' -61.6 NC_005178.1 + 35475 0.69 0.191574
Target:  5'- -gCUGu-CGGUGGCGGCCagcgccggGGCCAGu -3'
miRNA:   3'- ggGACuuGCCACCGCCGGag------CCGGUU- -5'
23025 3' -61.6 NC_005178.1 + 35061 0.67 0.255196
Target:  5'- gCUCUGcgacaGGCuGGUcGGC-GCCUCGGCCAGc -3'
miRNA:   3'- -GGGAC-----UUG-CCA-CCGcCGGAGCCGGUU- -5'
23025 3' -61.6 NC_005178.1 + 31661 0.71 0.127456
Target:  5'- gCCUGGACGG-GGCGGaCCagguccaGGCCGg -3'
miRNA:   3'- gGGACUUGCCaCCGCC-GGag-----CCGGUu -5'
23025 3' -61.6 NC_005178.1 + 30792 0.73 0.091116
Target:  5'- gCCUGGcaGCGGUcGCGGCCUCgaccugGGCCGg -3'
miRNA:   3'- gGGACU--UGCCAcCGCCGGAG------CCGGUu -5'
23025 3' -61.6 NC_005178.1 + 28157 0.68 0.19517
Target:  5'- -gCUG-ACGGUcGGCGccucggcuguauccGCCUCGGCCGg -3'
miRNA:   3'- ggGACuUGCCA-CCGC--------------CGGAGCCGGUu -5'
23025 3' -61.6 NC_005178.1 + 28123 0.67 0.24876
Target:  5'- gCCUGGGCGGUGGCa-CCgauggCGGCg-- -3'
miRNA:   3'- gGGACUUGCCACCGccGGa----GCCGguu -5'
23025 3' -61.6 NC_005178.1 + 25703 0.71 0.139977
Target:  5'- gCCUGcugccggucgaacucGGCGGUGGCuuucgccgcaGCCUCGGCCGc -3'
miRNA:   3'- gGGAC---------------UUGCCACCGc---------CGGAGCCGGUu -5'
23025 3' -61.6 NC_005178.1 + 24420 0.7 0.150303
Target:  5'- aCCUGcuUGGUGGCGGCgUacucauaGGCCGc -3'
miRNA:   3'- gGGACuuGCCACCGCCGgAg------CCGGUu -5'
23025 3' -61.6 NC_005178.1 + 24103 0.68 0.230255
Target:  5'- -gUUG-ACGGUGGCGGUCUU-GCCGAu -3'
miRNA:   3'- ggGACuUGCCACCGCCGGAGcCGGUU- -5'
23025 3' -61.6 NC_005178.1 + 20532 0.71 0.136182
Target:  5'- -gCUGGGCGGUGGCGGCggcgaucugCUCgacguccgcguccugGGCCAGg -3'
miRNA:   3'- ggGACUUGCCACCGCCG---------GAG---------------CCGGUU- -5'
23025 3' -61.6 NC_005178.1 + 18180 0.73 0.090859
Target:  5'- aCCCUGGcgguucggcugcGCGGUGGCgucuaugGGCCg-GGCCAAa -3'
miRNA:   3'- -GGGACU------------UGCCACCG-------CCGGagCCGGUU- -5'
23025 3' -61.6 NC_005178.1 + 17145 0.67 0.261104
Target:  5'- cCCUUGcGCuccaGGUacucaauGGCGGCCUCcGGCCGc -3'
miRNA:   3'- -GGGACuUG----CCA-------CCGCCGGAG-CCGGUu -5'
23025 3' -61.6 NC_005178.1 + 16640 0.69 0.175396
Target:  5'- aCCagGGGCGGUaaugacguugccauGGCGGCCaggUCGGCCc- -3'
miRNA:   3'- gGGa-CUUGCCA--------------CCGCCGG---AGCCGGuu -5'
23025 3' -61.6 NC_005178.1 + 16188 0.82 0.019096
Target:  5'- aCCCUgcugcGAGCGGUGacCGGCCUCGGCCAu -3'
miRNA:   3'- -GGGA-----CUUGCCACc-GCCGGAGCCGGUu -5'
23025 3' -61.6 NC_005178.1 + 15024 0.68 0.230255
Target:  5'- gCUU--GCGGaUGGCGGCCUCGaCCAc -3'
miRNA:   3'- gGGAcuUGCC-ACCGCCGGAGCcGGUu -5'
23025 3' -61.6 NC_005178.1 + 12801 0.66 0.303362
Target:  5'- uCCCUGGA-GGUcGCGGCCgccauguUCGGCg-- -3'
miRNA:   3'- -GGGACUUgCCAcCGCCGG-------AGCCGguu -5'
23025 3' -61.6 NC_005178.1 + 12416 0.67 0.242459
Target:  5'- gCCUGGGCGGcacguugacgGGCGGUUUCGaGCUg- -3'
miRNA:   3'- gGGACUUGCCa---------CCGCCGGAGC-CGGuu -5'
23025 3' -61.6 NC_005178.1 + 12087 0.68 0.196729
Target:  5'- gCCUGGugGaGUGGUcgcguggcgGGCCU-GGCCGAu -3'
miRNA:   3'- gGGACUugC-CACCG---------CCGGAgCCGGUU- -5'
23025 3' -61.6 NC_005178.1 + 7410 0.7 0.158713
Target:  5'- aCCUGAugGGcuuccaGcGCGacGCCUCGGCCGg -3'
miRNA:   3'- gGGACUugCCa-----C-CGC--CGGAGCCGGUu -5'
23025 3' -61.6 NC_005178.1 + 7078 0.74 0.074701
Target:  5'- gCCCUGGGCGa-GGCGGugaCCUCGGUCGAg -3'
miRNA:   3'- -GGGACUUGCcaCCGCC---GGAGCCGGUU- -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.