miRNA display CGI


Results 1 - 20 of 66 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
7240 3' -58.7 NC_001900.1 + 338 0.71 0.267114
Target:  5'- uCCGGCAACcGcCGGAucuaGcGCCGCGCCu -3'
miRNA:   3'- -GGCCGUUGcC-GCUUua--C-CGGCGCGGc -5'
7240 3' -58.7 NC_001900.1 + 1172 0.68 0.390907
Target:  5'- -aGGCGGCGGUGGA---GCCGCcggaagcgGCCGg -3'
miRNA:   3'- ggCCGUUGCCGCUUuacCGGCG--------CGGC- -5'
7240 3' -58.7 NC_001900.1 + 1249 0.68 0.382157
Target:  5'- gCGGCGGCaGCGGAGcUGGCgGCGgguUCGg -3'
miRNA:   3'- gGCCGUUGcCGCUUU-ACCGgCGC---GGC- -5'
7240 3' -58.7 NC_001900.1 + 3032 0.73 0.190038
Target:  5'- aCCGGCGACGGguccgccuggagauCGAGcgGGCaCcCGCCGa -3'
miRNA:   3'- -GGCCGUUGCC--------------GCUUuaCCG-GcGCGGC- -5'
7240 3' -58.7 NC_001900.1 + 3912 0.7 0.324648
Target:  5'- aUCGaGUucguCGGCGAGcUGGCCGagaCGCCGg -3'
miRNA:   3'- -GGC-CGuu--GCCGCUUuACCGGC---GCGGC- -5'
7240 3' -58.7 NC_001900.1 + 4237 1.1 0.000388
Target:  5'- aCCGGCAACGGCGAAAUGGCCGCGCCGu -3'
miRNA:   3'- -GGCCGUUGCCGCUUUACCGGCGCGGC- -5'
7240 3' -58.7 NC_001900.1 + 4358 0.67 0.485144
Target:  5'- gUGGCAGCGGCcagc-GGCCugGCuGCCGc -3'
miRNA:   3'- gGCCGUUGCCGcuuuaCCGG--CG-CGGC- -5'
7240 3' -58.7 NC_001900.1 + 5327 0.66 0.536154
Target:  5'- gUCGGCGguggaACGGCaaGGAGUgGGUCGCGUg- -3'
miRNA:   3'- -GGCCGU-----UGCCG--CUUUA-CCGGCGCGgc -5'
7240 3' -58.7 NC_001900.1 + 5462 0.69 0.348482
Target:  5'- aCGGCGGCGGUccugcGGAUGcaCCGCGUCGg -3'
miRNA:   3'- gGCCGUUGCCGc----UUUACc-GGCGCGGC- -5'
7240 3' -58.7 NC_001900.1 + 5580 0.69 0.3404
Target:  5'- -aGGCGGCGcacCGAGcUGGCCG-GCCGa -3'
miRNA:   3'- ggCCGUUGCc--GCUUuACCGGCgCGGC- -5'
7240 3' -58.7 NC_001900.1 + 5713 0.71 0.253445
Target:  5'- gCCGGauCAACGGCGGgcucaccaaccucGAUGaccGCCGaCGCCGg -3'
miRNA:   3'- -GGCC--GUUGCCGCU-------------UUAC---CGGC-GCGGC- -5'
7240 3' -58.7 NC_001900.1 + 5971 0.76 0.131761
Target:  5'- aCGGCGACGGCaugg-GGCCGC-CCGc -3'
miRNA:   3'- gGCCGUUGCCGcuuuaCCGGCGcGGC- -5'
7240 3' -58.7 NC_001900.1 + 6017 0.69 0.356699
Target:  5'- gCCGGUGACcuccGCGAGcUGGagcgaguuguCCGCGCCGc -3'
miRNA:   3'- -GGCCGUUGc---CGCUUuACC----------GGCGCGGC- -5'
7240 3' -58.7 NC_001900.1 + 6714 0.66 0.525787
Target:  5'- aUCGGCAacuaccccgcuGCGGCcuucccGAuGUGGCCGUcgGUCGa -3'
miRNA:   3'- -GGCCGU-----------UGCCG------CUuUACCGGCG--CGGC- -5'
7240 3' -58.7 NC_001900.1 + 7287 0.71 0.267114
Target:  5'- cCCGcucucGUAugGGCGAcaAGUGGCCGCaCCu -3'
miRNA:   3'- -GGC-----CGUugCCGCU--UUACCGGCGcGGc -5'
7240 3' -58.7 NC_001900.1 + 7800 0.69 0.3404
Target:  5'- aCCGGUca-GGCGAucggcaaGCCGCGCCc -3'
miRNA:   3'- -GGCCGuugCCGCUuuac---CGGCGCGGc -5'
7240 3' -58.7 NC_001900.1 + 8923 0.66 0.515498
Target:  5'- gCGGCAGCGGUccugcuGGAcgcGGCUGCugGCCa -3'
miRNA:   3'- gGCCGUUGCCG------CUUua-CCGGCG--CGGc -5'
7240 3' -58.7 NC_001900.1 + 9904 0.69 0.356699
Target:  5'- -aGGCGACuGCGGagcuGAUGGgCGUGCCc -3'
miRNA:   3'- ggCCGUUGcCGCU----UUACCgGCGCGGc -5'
7240 3' -58.7 NC_001900.1 + 10505 0.66 0.525787
Target:  5'- cUCGGCcuGCugGGCacGAUGGUCGaCGCCGa -3'
miRNA:   3'- -GGCCGu-UG--CCGcuUUACCGGC-GCGGC- -5'
7240 3' -58.7 NC_001900.1 + 10718 0.67 0.475215
Target:  5'- cCCGGUAugGaguucGCGAAgucgGUGGCCaagacGCuGCCGa -3'
miRNA:   3'- -GGCCGUugC-----CGCUU----UACCGG-----CG-CGGC- -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.