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 + 47578 0.73 0.112764
Target:  5'- gUCUCaGGCCCAGCGAcguuucgucGGCCGGGGguggCGa -3'
miRNA:   3'- -GGGG-CCGGGUCGCUa--------CCGGCUCCa---GC- -5'
7313 3' -63.3 NC_001900.1 + 46557 0.66 0.317322
Target:  5'- uCCCCaGCUCguuGGCGAUGGCUu-GGUgGg -3'
miRNA:   3'- -GGGGcCGGG---UCGCUACCGGcuCCAgC- -5'
7313 3' -63.3 NC_001900.1 + 43255 0.69 0.220965
Target:  5'- gUCUCGGUCCuccgcuaccuuGGCG-UGGCCGAuguguaGGUCGg -3'
miRNA:   3'- -GGGGCCGGG-----------UCGCuACCGGCU------CCAGC- -5'
7313 3' -63.3 NC_001900.1 + 43211 0.66 0.347849
Target:  5'- uCCCaCaGCUCcGCGA-GGUgGAGGUCGu -3'
miRNA:   3'- -GGG-GcCGGGuCGCUaCCGgCUCCAGC- -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 + 40361 0.7 0.171516
Target:  5'- aCCCGuGCUCGGCGA--GCCG-GGUCa -3'
miRNA:   3'- gGGGC-CGGGUCGCUacCGGCuCCAGc -5'
7313 3' -63.3 NC_001900.1 + 37067 0.68 0.23801
Target:  5'- aCCCGGacgccgCCA-CGGUGGCCGuGcGUCGa -3'
miRNA:   3'- gGGGCCg-----GGUcGCUACCGGCuC-CAGC- -5'
7313 3' -63.3 NC_001900.1 + 36629 0.72 0.128752
Target:  5'- cUCCCuGUCCAGaCGAcGGUCGAGGUUGc -3'
miRNA:   3'- -GGGGcCGGGUC-GCUaCCGGCUCCAGC- -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 + 35928 0.68 0.256142
Target:  5'- gCCUGGCUCGGaGAUGuaccgaGCCGAGGUg- -3'
miRNA:   3'- gGGGCCGGGUCgCUAC------CGGCUCCAgc -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 + 33170 0.7 0.182399
Target:  5'- gCCCUGGCCCAGCu-UGGCaaccuCGucgggaucaacgcccAGGUCGa -3'
miRNA:   3'- -GGGGCCGGGUCGcuACCG-----GC---------------UCCAGC- -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 + 30716 0.66 0.32476
Target:  5'- cCCaCCGGCCC--CGAaaGGCCGgGGGUCc -3'
miRNA:   3'- -GG-GGCCGGGucGCUa-CCGGC-UCCAGc -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 + 27965 0.66 0.332328
Target:  5'- --gCGGCCCAGCGAUcGGaCUGugaaaggagcaAGGUUGg -3'
miRNA:   3'- gggGCCGGGUCGCUA-CC-GGC-----------UCCAGC- -5'
7313 3' -63.3 NC_001900.1 + 26069 0.7 0.167155
Target:  5'- aUCCCGGCCCAccacGCccgGAcaagGGCgGGGGUCa -3'
miRNA:   3'- -GGGGCCGGGU----CG---CUa---CCGgCUCCAGc -5'
7313 3' -63.3 NC_001900.1 + 25469 0.67 0.295779
Target:  5'- -aCCGGCcugagccgCCAGCG-UGGCUcccacggcccgGAGGUCGu -3'
miRNA:   3'- ggGGCCG--------GGUCGCuACCGG-----------CUCCAGC- -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 + 23388 0.7 0.175527
Target:  5'- aCUCGGCCCAGCcggGGCCGAccgccguGGUg- -3'
miRNA:   3'- gGGGCCGGGUCGcuaCCGGCU-------CCAgc -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.