miRNA display CGI


Results 1 - 20 of 45 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
7313 3' -63.3 NC_001900.1 + 5808 0.66 0.347849
Target:  5'- -aCCGGCgUCGGCGGUcaUCGAGGUUGg -3'
miRNA:   3'- ggGGCCG-GGUCGCUAccGGCUCCAGC- -5'
7313 3' -63.3 NC_001900.1 + 19612 0.68 0.232209
Target:  5'- uCCCaCGGCCaCGGCGGUGuCCagaaguucGGGUCGa -3'
miRNA:   3'- -GGG-GCCGG-GUCGCUACcGGc-------UCCAGC- -5'
7313 3' -63.3 NC_001900.1 + 8632 0.68 0.232209
Target:  5'- gCCCCGGUCCAGCGGa-GCC-AGcUCGa -3'
miRNA:   3'- -GGGGCCGGGUCGCUacCGGcUCcAGC- -5'
7313 3' -63.3 NC_001900.1 + 29018 0.68 0.226528
Target:  5'- aCCUGGgUCGGCgcuGAUGGCCGAcgacguaaaGGUCa -3'
miRNA:   3'- gGGGCCgGGUCG---CUACCGGCU---------CCAGc -5'
7313 3' -63.3 NC_001900.1 + 22324 0.69 0.215518
Target:  5'- aCCUCGGCCaucGCug-GGCCGGGG-CGg -3'
miRNA:   3'- -GGGGCCGGgu-CGcuaCCGGCUCCaGC- -5'
7313 3' -63.3 NC_001900.1 + 35809 0.69 0.215518
Target:  5'- cCCCUGGCuacggCCAGCGGaGGCCGAcGUg- -3'
miRNA:   3'- -GGGGCCG-----GGUCGCUaCCGGCUcCAgc -5'
7313 3' -63.3 NC_001900.1 + 9195 0.7 0.175978
Target:  5'- aCCCGGCCC-GUGcgGGCCuucuugcucauGAGGUa- -3'
miRNA:   3'- gGGGCCGGGuCGCuaCCGG-----------CUCCAgc -5'
7313 3' -63.3 NC_001900.1 + 23388 0.7 0.175527
Target:  5'- aCUCGGCCCAGCcggGGCCGAccgccguGGUg- -3'
miRNA:   3'- gGGGCCGGGUCGcuaCCGGCU-------CCAgc -5'
7313 3' -63.3 NC_001900.1 + 30788 0.71 0.150692
Target:  5'- cCCCCGGCCUuuCGG-GGCCGguGGGuUCGg -3'
miRNA:   3'- -GGGGCCGGGucGCUaCCGGC--UCC-AGC- -5'
7313 3' -63.3 NC_001900.1 + 35928 0.68 0.256142
Target:  5'- gCCUGGCUCGGaGAUGuaccgaGCCGAGGUg- -3'
miRNA:   3'- gGGGCCGGGUCgCUAC------CGGCUCCAgc -5'
7313 3' -63.3 NC_001900.1 + 36507 0.67 0.262433
Target:  5'- gCUgCGGCCCGGUGA-GGCCGuGaUCu -3'
miRNA:   3'- -GGgGCCGGGUCGCUaCCGGCuCcAGc -5'
7313 3' -63.3 NC_001900.1 + 21356 0.67 0.262433
Target:  5'- -aCC-GCCCAGCGggGGC--AGGUCGa -3'
miRNA:   3'- ggGGcCGGGUCGCuaCCGgcUCCAGC- -5'
7313 3' -63.3 NC_001900.1 + 40381 0.66 0.347849
Target:  5'- aCCaCGGCCgCAGCGGcucacuGCCGAccggccacacGGUCGa -3'
miRNA:   3'- gGG-GCCGG-GUCGCUac----CGGCU----------CCAGC- -5'
7313 3' -63.3 NC_001900.1 + 27965 0.66 0.332328
Target:  5'- --gCGGCCCAGCGAUcGGaCUGugaaaggagcaAGGUUGg -3'
miRNA:   3'- gggGCCGGGUCGCUA-CC-GGC-----------UCCAGC- -5'
7313 3' -63.3 NC_001900.1 + 17322 0.66 0.31806
Target:  5'- gCCCGaGCCCGGUGAagaacucgccagugcGGUCGAGGa-- -3'
miRNA:   3'- gGGGC-CGGGUCGCUa--------------CCGGCUCCagc -5'
7313 3' -63.3 NC_001900.1 + 10575 0.67 0.288855
Target:  5'- aCCaUCGuGCCCAGCa--GGCCGAGGcccaUCGc -3'
miRNA:   3'- -GG-GGC-CGGGUCGcuaCCGGCUCC----AGC- -5'
7313 3' -63.3 NC_001900.1 + 23296 0.67 0.288855
Target:  5'- gCCUGcaGCUCGGCGAUGGCagaCGAGuUCGa -3'
miRNA:   3'- gGGGC--CGGGUCGCUACCG---GCUCcAGC- -5'
7313 3' -63.3 NC_001900.1 + 10242 0.67 0.275391
Target:  5'- gCCCUgauGGCCuCAGCGGaGGCCGGauGUCa -3'
miRNA:   3'- -GGGG---CCGG-GUCGCUaCCGGCUc-CAGc -5'
7313 3' -63.3 NC_001900.1 + 25229 0.67 0.268202
Target:  5'- aCCCGGCCCGagccucuGCGAggcUGGCUGcGGGa-- -3'
miRNA:   3'- gGGGCCGGGU-------CGCU---ACCGGC-UCCagc -5'
7313 3' -63.3 NC_001900.1 + 4070 0.67 0.262433
Target:  5'- gCCUGGCUCgaccaccgagacGGUGAUGGCCuucGAGGUg- -3'
miRNA:   3'- gGGGCCGGG------------UCGCUACCGG---CUCCAgc -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.