miRNA display CGI


Results 1 - 20 of 21 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
13443 3' -62 NC_003409.1 + 113937 0.66 0.630061
Target:  5'- gGUGGUGCCGGuUuucccaccaacggccGCGacgcgcGGGCCUGuaCa -3'
miRNA:   3'- gCACCACGGCCuA---------------CGU------CCCGGACcgG- -5'
13443 3' -62 NC_003409.1 + 109755 0.66 0.630061
Target:  5'- aCGUGGUGCCaucgcGCGGGGaaaaacagacgcgcuUCUGGCg -3'
miRNA:   3'- -GCACCACGGccua-CGUCCC---------------GGACCGg -5'
13443 3' -62 NC_003409.1 + 54775 0.66 0.625106
Target:  5'- aCGUGaUGCCcGAgguccagccaaucUGCAGuGGCC-GGCCg -3'
miRNA:   3'- -GCACcACGGcCU-------------ACGUC-CCGGaCCGG- -5'
13443 3' -62 NC_003409.1 + 131094 0.66 0.616189
Target:  5'- gGUGGccCUGGGUGUAguGGGCC-GGUCg -3'
miRNA:   3'- gCACCacGGCCUACGU--CCCGGaCCGG- -5'
13443 3' -62 NC_003409.1 + 52579 0.66 0.616189
Target:  5'- gCGUGGcgGCCaaGGG-GCGGGGaCgUGGCa -3'
miRNA:   3'- -GCACCa-CGG--CCUaCGUCCC-GgACCGg -5'
13443 3' -62 NC_003409.1 + 102291 0.66 0.615199
Target:  5'- --cGGUGCCuGG-GCAGcuacagucccaccGGCUUGGCCu -3'
miRNA:   3'- gcaCCACGGcCUaCGUC-------------CCGGACCGG- -5'
13443 3' -62 NC_003409.1 + 86584 0.66 0.612229
Target:  5'- aGUGGcuaacgggcguacGCCGcccGUGCGGGGaCCUGGaCCu -3'
miRNA:   3'- gCACCa------------CGGCc--UACGUCCC-GGACC-GG- -5'
13443 3' -62 NC_003409.1 + 50662 0.66 0.606294
Target:  5'- aGUGGUcGCgGGGguCAGGGCaCUcgacGGCCu -3'
miRNA:   3'- gCACCA-CGgCCUacGUCCCG-GA----CCGG- -5'
13443 3' -62 NC_003409.1 + 31667 0.66 0.595429
Target:  5'- gGUGGUGUgacggcuUGGAUGCcgaccGGGaauuggCUGGCCu -3'
miRNA:   3'- gCACCACG-------GCCUACGu----CCCg-----GACCGG- -5'
13443 3' -62 NC_003409.1 + 115616 0.66 0.593457
Target:  5'- gGUGGUGuCUGuaaucuggcagcauGggGUGGGGCCggUGGCCu -3'
miRNA:   3'- gCACCAC-GGC--------------CuaCGUCCCGG--ACCGG- -5'
13443 3' -62 NC_003409.1 + 87635 0.66 0.586563
Target:  5'- --cGGUGCCGaaggcgcuUGCGGGGCaucacagaaGGCCg -3'
miRNA:   3'- gcaCCACGGCcu------ACGUCCCGga-------CCGG- -5'
13443 3' -62 NC_003409.1 + 118868 0.66 0.586563
Target:  5'- aCGgcugGaGUGgCGGuggGCGGGGCCccuauaauccUGGCCc -3'
miRNA:   3'- -GCa---C-CACgGCCua-CGUCCCGG----------ACCGG- -5'
13443 3' -62 NC_003409.1 + 97559 0.67 0.57576
Target:  5'- -cUGGUGCaCGugggaaacaucaaGGUGCAGGGguaUCUGGCUa -3'
miRNA:   3'- gcACCACG-GC-------------CUACGUCCC---GGACCGG- -5'
13443 3' -62 NC_003409.1 + 108804 0.67 0.528298
Target:  5'- -aUGGUGauaUGGucucCuGGGCCUGGCCg -3'
miRNA:   3'- gcACCACg--GCCuac-GuCCCGGACCGG- -5'
13443 3' -62 NC_003409.1 + 22643 0.68 0.489734
Target:  5'- uGUGGagcaugUGCUGGGUGUugcgcgcacauuuGGGGCUgcucuucugggUGGCCg -3'
miRNA:   3'- gCACC------ACGGCCUACG-------------UCCCGG-----------ACCGG- -5'
13443 3' -62 NC_003409.1 + 23931 0.68 0.481442
Target:  5'- --gGGUGCCaGGAUuauaGGGGCCUGuCCa -3'
miRNA:   3'- gcaCCACGG-CCUAcg--UCCCGGACcGG- -5'
13443 3' -62 NC_003409.1 + 67333 0.69 0.454314
Target:  5'- gCGUGGagGCCaGGAUGC-GGGUUgGGUCg -3'
miRNA:   3'- -GCACCa-CGG-CCUACGuCCCGGaCCGG- -5'
13443 3' -62 NC_003409.1 + 118477 0.69 0.428036
Target:  5'- --gGGUGCgGGGUGCGGGGgaCC-GcGCCg -3'
miRNA:   3'- gcaCCACGgCCUACGUCCC--GGaC-CGG- -5'
13443 3' -62 NC_003409.1 + 6396 0.7 0.402678
Target:  5'- gCGggGGUGCCauGGAcgGCcgAGGGUgUGGCCu -3'
miRNA:   3'- -GCa-CCACGG--CCUa-CG--UCCCGgACCGG- -5'
13443 3' -62 NC_003409.1 + 87170 0.78 0.125381
Target:  5'- gGUGGUgcGCCGGcgG-AGGGCgUGGCCg -3'
miRNA:   3'- gCACCA--CGGCCuaCgUCCCGgACCGG- -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.