miRNA display CGI


Results 1 - 20 of 41 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
19475 5' -52.9 NC_004685.1 + 40141 0.66 0.903532
Target:  5'- -cAUGGCGGCGAuguCCUCggccauGCUCGg -3'
miRNA:   3'- gcUAUUGCCGCUuu-GGGGacu---CGAGC- -5'
19475 5' -52.9 NC_004685.1 + 25825 0.66 0.896691
Target:  5'- gCGAcGAUGGUGAcgauGCCgCUGGGCgCGa -3'
miRNA:   3'- -GCUaUUGCCGCUu---UGGgGACUCGaGC- -5'
19475 5' -52.9 NC_004685.1 + 30554 0.66 0.895992
Target:  5'- aGAUAAgguCGGCGGcagucucAGCUCaCUGGGUUCGc -3'
miRNA:   3'- gCUAUU---GCCGCU-------UUGGG-GACUCGAGC- -5'
19475 5' -52.9 NC_004685.1 + 21584 0.66 0.889588
Target:  5'- gGGcAGCGGCGAcGCCuaCCUGuuCUCGa -3'
miRNA:   3'- gCUaUUGCCGCUuUGG--GGACucGAGC- -5'
19475 5' -52.9 NC_004685.1 + 17527 0.66 0.881475
Target:  5'- -cGUGGCguGGCGAcGCCCCUGGuccagguGUUCGa -3'
miRNA:   3'- gcUAUUG--CCGCUuUGGGGACU-------CGAGC- -5'
19475 5' -52.9 NC_004685.1 + 55714 0.66 0.874609
Target:  5'- gGAUGAaCGGCGcGACCCgCUcGcGCUUGg -3'
miRNA:   3'- gCUAUU-GCCGCuUUGGG-GA-CuCGAGC- -5'
19475 5' -52.9 NC_004685.1 + 22815 0.67 0.866745
Target:  5'- ---gGACGGgGcAACCCCUggcGAGCUgGg -3'
miRNA:   3'- gcuaUUGCCgCuUUGGGGA---CUCGAgC- -5'
19475 5' -52.9 NC_004685.1 + 26973 0.67 0.866745
Target:  5'- aGGUGGCGGCGAaaGACCaCCaGGcGCUg- -3'
miRNA:   3'- gCUAUUGCCGCU--UUGG-GGaCU-CGAgc -5'
19475 5' -52.9 NC_004685.1 + 19349 0.67 0.866745
Target:  5'- aGAUGcgccGCGGCGAAgucgGCCCCgGcAGCcCGc -3'
miRNA:   3'- gCUAU----UGCCGCUU----UGGGGaC-UCGaGC- -5'
19475 5' -52.9 NC_004685.1 + 3336 0.67 0.861911
Target:  5'- cCGAUuuCGGCGugGCCCCgucuccagcgucaauUGGGCguguUCGg -3'
miRNA:   3'- -GCUAuuGCCGCuuUGGGG---------------ACUCG----AGC- -5'
19475 5' -52.9 NC_004685.1 + 8276 0.67 0.85864
Target:  5'- gGGUGGCggGGCGuucuGCCCCUGaAGCg-- -3'
miRNA:   3'- gCUAUUG--CCGCuu--UGGGGAC-UCGagc -5'
19475 5' -52.9 NC_004685.1 + 39113 0.67 0.85864
Target:  5'- ---gAACGGCG-AACCCagUGAGCUg- -3'
miRNA:   3'- gcuaUUGCCGCuUUGGGg-ACUCGAgc -5'
19475 5' -52.9 NC_004685.1 + 38976 0.67 0.850302
Target:  5'- uCGGcGACGGCGGcgcguaccgcGACCCC-GAGCa-- -3'
miRNA:   3'- -GCUaUUGCCGCU----------UUGGGGaCUCGagc -5'
19475 5' -52.9 NC_004685.1 + 9893 0.67 0.850302
Target:  5'- aCGAcucgGGCGGCGgcACCCCgcagcGGUUCa -3'
miRNA:   3'- -GCUa---UUGCCGCuuUGGGGac---UCGAGc -5'
19475 5' -52.9 NC_004685.1 + 18371 0.67 0.850302
Target:  5'- aGGUGACGaucaGCGucGCCCCUGAcGCg-- -3'
miRNA:   3'- gCUAUUGC----CGCuuUGGGGACU-CGagc -5'
19475 5' -52.9 NC_004685.1 + 40566 0.67 0.841737
Target:  5'- gGAccGCGGUGucGACCaCCUGGGC-CGg -3'
miRNA:   3'- gCUauUGCCGCu-UUGG-GGACUCGaGC- -5'
19475 5' -52.9 NC_004685.1 + 22610 0.67 0.840869
Target:  5'- aCGAUGAUGGUGGcgaccgccgggguGAUCCCggUGGGCUgCGu -3'
miRNA:   3'- -GCUAUUGCCGCU-------------UUGGGG--ACUCGA-GC- -5'
19475 5' -52.9 NC_004685.1 + 58174 0.68 0.823965
Target:  5'- cCGucuGCGcCGAAugCCCUGuGCUCa -3'
miRNA:   3'- -GCuauUGCcGCUUugGGGACuCGAGc -5'
19475 5' -52.9 NC_004685.1 + 53649 0.68 0.823965
Target:  5'- gCGGUAuucGCGGCGcgcGCCCUUcuucAGCUCGa -3'
miRNA:   3'- -GCUAU---UGCCGCuu-UGGGGAc---UCGAGC- -5'
19475 5' -52.9 NC_004685.1 + 59314 0.68 0.812914
Target:  5'- uCGAUGGCGGCGucgcggguguuGCCCuucuucagcaggCUGAGCacUCGg -3'
miRNA:   3'- -GCUAUUGCCGCuu---------UGGG------------GACUCG--AGC- -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.