miRNA display CGI


Results 1 - 20 of 28 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
23063 3' -56.9 NC_005178.1 + 23453 0.75 0.135634
Target:  5'- gCGACGgccagGGCgCCCGGcgcgAAGCCGGCCc -3'
miRNA:   3'- -GCUGCa----UCGgGGGCCa---UUUGGUCGGu -5'
23063 3' -56.9 NC_005178.1 + 14050 0.66 0.527553
Target:  5'- -cGCGUGGUaaugccaaguccaCCCUGGUGAGCCAGa-- -3'
miRNA:   3'- gcUGCAUCG-------------GGGGCCAUUUGGUCggu -5'
23063 3' -56.9 NC_005178.1 + 32918 0.66 0.517898
Target:  5'- gCGGCGUGGUCgCCGGcauGCCgauGGCUg -3'
miRNA:   3'- -GCUGCAUCGGgGGCCauuUGG---UCGGu -5'
23063 3' -56.9 NC_005178.1 + 3035 0.66 0.485217
Target:  5'- cCGAgCGUGGCgCCCUGGU--GCCGaagguccGCCGc -3'
miRNA:   3'- -GCU-GCAUCG-GGGGCCAuuUGGU-------CGGU- -5'
23063 3' -56.9 NC_005178.1 + 31907 0.67 0.465678
Target:  5'- gGAUGgcGCUgCCGGUc-AUCGGCCAu -3'
miRNA:   3'- gCUGCauCGGgGGCCAuuUGGUCGGU- -5'
23063 3' -56.9 NC_005178.1 + 20800 0.67 0.445562
Target:  5'- gGACGaGGCCgCCCucgcGGUuuGCuCGGCCAu -3'
miRNA:   3'- gCUGCaUCGG-GGG----CCAuuUG-GUCGGU- -5'
23063 3' -56.9 NC_005178.1 + 21634 0.67 0.435687
Target:  5'- uCGGCGgcucAGCUCCCGGacGAGCUGGUCu -3'
miRNA:   3'- -GCUGCa---UCGGGGGCCa-UUUGGUCGGu -5'
23063 3' -56.9 NC_005178.1 + 9467 0.67 0.435687
Target:  5'- gGACGUGGUggUCCGGUAcugauGAgCAGCCAc -3'
miRNA:   3'- gCUGCAUCGg-GGGCCAU-----UUgGUCGGU- -5'
23063 3' -56.9 NC_005178.1 + 2772 0.68 0.425941
Target:  5'- aGACGcAGCuggCCCUGGUcgAAACCAaccGCCAg -3'
miRNA:   3'- gCUGCaUCG---GGGGCCA--UUUGGU---CGGU- -5'
23063 3' -56.9 NC_005178.1 + 35897 0.68 0.379225
Target:  5'- -aACGgcGCCCCCGGUGAGgggcauuaCAGCg- -3'
miRNA:   3'- gcUGCauCGGGGGCCAUUUg-------GUCGgu -5'
23063 3' -56.9 NC_005178.1 + 17880 0.69 0.352894
Target:  5'- gGACGU-GCUccuggaCCCGGUAcGCCAGCg- -3'
miRNA:   3'- gCUGCAuCGG------GGGCCAUuUGGUCGgu -5'
23063 3' -56.9 NC_005178.1 + 17630 0.69 0.327882
Target:  5'- uGACGgucgAGUCCagcgCCGGcaAGACCGGCCAg -3'
miRNA:   3'- gCUGCa---UCGGG----GGCCa-UUUGGUCGGU- -5'
23063 3' -56.9 NC_005178.1 + 34572 0.7 0.296612
Target:  5'- gGGCGU-GCCUaCCGGgGAGCUGGCCGg -3'
miRNA:   3'- gCUGCAuCGGG-GGCCaUUUGGUCGGU- -5'
23063 3' -56.9 NC_005178.1 + 12935 0.73 0.20541
Target:  5'- gGACGUGGCgCgCCaGGUGcuGGCCGGCCu -3'
miRNA:   3'- gCUGCAUCGgG-GG-CCAU--UUGGUCGGu -5'
23063 3' -56.9 NC_005178.1 + 10122 0.69 0.336071
Target:  5'- uCGGCGUAGCUCCagGGgcGaugggcGCUGGCCAg -3'
miRNA:   3'- -GCUGCAUCGGGGg-CCauU------UGGUCGGU- -5'
23063 3' -56.9 NC_005178.1 + 28205 0.7 0.319841
Target:  5'- cCGAcCGUcAGCCCCUGGgc-GCC-GCCAu -3'
miRNA:   3'- -GCU-GCA-UCGGGGGCCauuUGGuCGGU- -5'
23063 3' -56.9 NC_005178.1 + 28622 0.7 0.311949
Target:  5'- cCGGCGacGCCCCCGGU-GGCgCGGCgGa -3'
miRNA:   3'- -GCUGCauCGGGGGCCAuUUG-GUCGgU- -5'
23063 3' -56.9 NC_005178.1 + 33998 0.7 0.304206
Target:  5'- aCGugGUAaCgCCCCGGaAAGCCGGCa- -3'
miRNA:   3'- -GCugCAUcG-GGGGCCaUUUGGUCGgu -5'
23063 3' -56.9 NC_005178.1 + 25260 0.71 0.244966
Target:  5'- aGGCGgcaaucgcuacagAGCCCCCGGcgAAGCCAugguugaccGCCAu -3'
miRNA:   3'- gCUGCa------------UCGGGGGCCa-UUUGGU---------CGGU- -5'
23063 3' -56.9 NC_005178.1 + 34884 0.66 0.52863
Target:  5'- uGGCGgcGCCaCgCCGGUugucGCCGGCa- -3'
miRNA:   3'- gCUGCauCGG-G-GGCCAuu--UGGUCGgu -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.