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
11018 3' -59.6 NC_002794.1 + 63480 0.66 0.814393
Target:  5'- cGGCGGccgCCGUCGAcGacgCCGC-GGCGu -3'
miRNA:   3'- -CCGUCa--GGCAGCU-Cga-GGCGaCCGUu -5'
11018 3' -59.6 NC_002794.1 + 116639 0.66 0.814393
Target:  5'- cGGCAGgggcccggCCGUCcGGCUCUugaggcgcuGCUcGGCGAg -3'
miRNA:   3'- -CCGUCa-------GGCAGcUCGAGG---------CGA-CCGUU- -5'
11018 3' -59.6 NC_002794.1 + 14992 0.66 0.814393
Target:  5'- cGGCAGcagcUCC-UCGGGCggucUCgGCUGGCu- -3'
miRNA:   3'- -CCGUC----AGGcAGCUCG----AGgCGACCGuu -5'
11018 3' -59.6 NC_002794.1 + 63996 0.66 0.805886
Target:  5'- aGCGGgcUCCGUCuGGgUCCugcgGCUGGCGAu -3'
miRNA:   3'- cCGUC--AGGCAGcUCgAGG----CGACCGUU- -5'
11018 3' -59.6 NC_002794.1 + 122344 0.66 0.805886
Target:  5'- uGGCcGUCCGgagcacCGAGgUCUGCUacGGCGg -3'
miRNA:   3'- -CCGuCAGGCa-----GCUCgAGGCGA--CCGUu -5'
11018 3' -59.6 NC_002794.1 + 189404 0.66 0.805886
Target:  5'- cGUAGUCCGccagggccagCGGGUUCUGCUGccGCAGg -3'
miRNA:   3'- cCGUCAGGCa---------GCUCGAGGCGAC--CGUU- -5'
11018 3' -59.6 NC_002794.1 + 34092 0.66 0.788436
Target:  5'- gGGCAG-CCGUCGGGCggcccggaCCGCgacguccGCGAc -3'
miRNA:   3'- -CCGUCaGGCAGCUCGa-------GGCGac-----CGUU- -5'
11018 3' -59.6 NC_002794.1 + 19986 0.66 0.779509
Target:  5'- gGGCuGUCCGUCcuGGUggCGCUGcGCAAc -3'
miRNA:   3'- -CCGuCAGGCAGc-UCGagGCGAC-CGUU- -5'
11018 3' -59.6 NC_002794.1 + 118274 0.66 0.770458
Target:  5'- cGGCGGcgCCGgcgUCGGGgaCCGCgccgGGCGc -3'
miRNA:   3'- -CCGUCa-GGC---AGCUCgaGGCGa---CCGUu -5'
11018 3' -59.6 NC_002794.1 + 130445 0.66 0.770458
Target:  5'- aGGC-GUCCGUguUGGGCggcgaggCGCUGGCGg -3'
miRNA:   3'- -CCGuCAGGCA--GCUCGag-----GCGACCGUu -5'
11018 3' -59.6 NC_002794.1 + 64300 0.67 0.761291
Target:  5'- cGCGGccCCGUCGuGCUCCGCcaccaccccgGGCc- -3'
miRNA:   3'- cCGUCa-GGCAGCuCGAGGCGa---------CCGuu -5'
11018 3' -59.6 NC_002794.1 + 114730 0.67 0.714009
Target:  5'- cGGCuccgGGUUCGUCGAGCcggcgccgcCCGCcGGCGc -3'
miRNA:   3'- -CCG----UCAGGCAGCUCGa--------GGCGaCCGUu -5'
11018 3' -59.6 NC_002794.1 + 154142 0.69 0.605623
Target:  5'- aGGCGGUCUacuGUuaCGAGUUUCGCgcggGGCAGa -3'
miRNA:   3'- -CCGUCAGG---CA--GCUCGAGGCGa---CCGUU- -5'
11018 3' -59.6 NC_002794.1 + 86942 0.7 0.584891
Target:  5'- gGGCGGgaUCCGgCGAGCgucgacgUCCGCUgcGGCGAg -3'
miRNA:   3'- -CCGUC--AGGCaGCUCG-------AGGCGA--CCGUU- -5'
11018 3' -59.6 NC_002794.1 + 41261 0.7 0.53716
Target:  5'- cGGCGGcCCGUCGucgcGCUCCGagaacGGCGg -3'
miRNA:   3'- -CCGUCaGGCAGCu---CGAGGCga---CCGUu -5'
11018 3' -59.6 NC_002794.1 + 111442 0.7 0.53716
Target:  5'- cGGCAGUCgGggCGGGUUCUGCucuUGGCu- -3'
miRNA:   3'- -CCGUCAGgCa-GCUCGAGGCG---ACCGuu -5'
11018 3' -59.6 NC_002794.1 + 57772 0.71 0.498288
Target:  5'- aGCAGaCCGUCGAGCUcaccuucuucuucCCGCUcGGCc- -3'
miRNA:   3'- cCGUCaGGCAGCUCGA-------------GGCGA-CCGuu -5'
11018 3' -59.6 NC_002794.1 + 67055 0.72 0.42729
Target:  5'- cGGC-GUCCGU-GGGCUCCucGCUGGCc- -3'
miRNA:   3'- -CCGuCAGGCAgCUCGAGG--CGACCGuu -5'
11018 3' -59.6 NC_002794.1 + 94014 0.75 0.303737
Target:  5'- cGGCGGgCCGgCGGGUUCCGCcGGCGGg -3'
miRNA:   3'- -CCGUCaGGCaGCUCGAGGCGaCCGUU- -5'
11018 3' -59.6 NC_002794.1 + 91238 0.76 0.258993
Target:  5'- cGGCGG-CCGUCGGGCUgCGCUcGCGGa -3'
miRNA:   3'- -CCGUCaGGCAGCUCGAgGCGAcCGUU- -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.