miRNA display CGI


Results 1 - 20 of 24 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
32098 3' -54.2 NC_007016.1 + 127480 0.66 0.940236
Target:  5'- cGGcACGCGuuguCGGUUgCAGGAAGUACAu -3'
miRNA:   3'- aCCaUGCGU----GCCGAgGUCCUUUGUGU- -5'
32098 3' -54.2 NC_007016.1 + 25783 0.66 0.940236
Target:  5'- gUGGUuucguuCGCACGGCggaUGGGAGGgACu -3'
miRNA:   3'- -ACCAu-----GCGUGCCGag-GUCCUUUgUGu -5'
32098 3' -54.2 NC_007016.1 + 86833 0.66 0.935297
Target:  5'- --aUGCGgACGGgUCCGGGAuuUACGu -3'
miRNA:   3'- accAUGCgUGCCgAGGUCCUuuGUGU- -5'
32098 3' -54.2 NC_007016.1 + 110655 0.66 0.935297
Target:  5'- aGGUGCGUAUGGCguuc-GAGACGCc -3'
miRNA:   3'- aCCAUGCGUGCCGaggucCUUUGUGu -5'
32098 3' -54.2 NC_007016.1 + 116580 0.66 0.930107
Target:  5'- uUGGcgGCGCGgcCGGUUCUGGGAAAUg-- -3'
miRNA:   3'- -ACCa-UGCGU--GCCGAGGUCCUUUGugu -5'
32098 3' -54.2 NC_007016.1 + 106945 0.66 0.924106
Target:  5'- cGGUGCGUgcucgccaacaacGCGGCacacUCCAuacGAGACGCGa -3'
miRNA:   3'- aCCAUGCG-------------UGCCG----AGGUc--CUUUGUGU- -5'
32098 3' -54.2 NC_007016.1 + 61053 0.66 0.91897
Target:  5'- ---cGCGUACGGCgugaCUAGGgcACACGa -3'
miRNA:   3'- accaUGCGUGCCGa---GGUCCuuUGUGU- -5'
32098 3' -54.2 NC_007016.1 + 11005 0.66 0.91897
Target:  5'- uUGGUGCGUuuuguccuCGGUgCCAGGA--CACGu -3'
miRNA:   3'- -ACCAUGCGu-------GCCGaGGUCCUuuGUGU- -5'
32098 3' -54.2 NC_007016.1 + 130209 0.67 0.906826
Target:  5'- cGGcccgGCGCGCGGCgcggggcggCCGGGGGcgGCGg -3'
miRNA:   3'- aCCa---UGCGUGCCGa--------GGUCCUUugUGU- -5'
32098 3' -54.2 NC_007016.1 + 13283 0.67 0.88956
Target:  5'- gGGUGCGCgaaucgauuggccgcGCGGCUCUggcGGGcgGCAa- -3'
miRNA:   3'- aCCAUGCG---------------UGCCGAGG---UCCuuUGUgu -5'
32098 3' -54.2 NC_007016.1 + 82119 0.68 0.864558
Target:  5'- ---gGCGCAUGGCUcucugguaCCGGGGAGCggGCAa -3'
miRNA:   3'- accaUGCGUGCCGA--------GGUCCUUUG--UGU- -5'
32098 3' -54.2 NC_007016.1 + 7619 0.68 0.856708
Target:  5'- aGGUACaGCGCGGCggUCUugguguuuGGGAAuaGCGCGc -3'
miRNA:   3'- aCCAUG-CGUGCCG--AGG--------UCCUU--UGUGU- -5'
32098 3' -54.2 NC_007016.1 + 76568 0.69 0.814389
Target:  5'- cGGUGC-CACGGUUCCcgAGaacGggGCGCAu -3'
miRNA:   3'- aCCAUGcGUGCCGAGG--UC---CuuUGUGU- -5'
32098 3' -54.2 NC_007016.1 + 20561 0.69 0.805367
Target:  5'- uUGGcgGCGCAgGGCUuuGGGGAcCGCc -3'
miRNA:   3'- -ACCa-UGCGUgCCGAggUCCUUuGUGu -5'
32098 3' -54.2 NC_007016.1 + 115641 0.7 0.777345
Target:  5'- aUGGUGCGCaugaggGCGGCggggucgCgGGGAGGuCACAc -3'
miRNA:   3'- -ACCAUGCG------UGCCGa------GgUCCUUU-GUGU- -5'
32098 3' -54.2 NC_007016.1 + 17826 0.7 0.767716
Target:  5'- ---cACGCugGGCgaUCGGGGAACACGc -3'
miRNA:   3'- accaUGCGugCCGa-GGUCCUUUGUGU- -5'
32098 3' -54.2 NC_007016.1 + 114194 0.7 0.767716
Target:  5'- gGGUGgGgugGCGGCUCCGGGuggcuccggguGGGCACAg -3'
miRNA:   3'- aCCAUgCg--UGCCGAGGUCC-----------UUUGUGU- -5'
32098 3' -54.2 NC_007016.1 + 118853 0.7 0.757961
Target:  5'- gGGUAU-CGCGGCgggCgCGGGggGCGCGc -3'
miRNA:   3'- aCCAUGcGUGCCGa--G-GUCCuuUGUGU- -5'
32098 3' -54.2 NC_007016.1 + 115584 0.7 0.757961
Target:  5'- gGGUACGCGCGGCgaCCAuuaAAACAUg -3'
miRNA:   3'- aCCAUGCGUGCCGa-GGUcc-UUUGUGu -5'
32098 3' -54.2 NC_007016.1 + 21242 0.7 0.748088
Target:  5'- gGGgagACGCugGGggagaCUCCGGGGGAgACGc -3'
miRNA:   3'- aCCa--UGCGugCC-----GAGGUCCUUUgUGU- -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.