miRNA display CGI


Results 1 - 20 of 50 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
23840 3' -57.6 NC_005261.1 + 2116 0.66 0.806459
Target:  5'- ----aGCAcGCCCUGCGcgCCgagcGCGCUCa -3'
miRNA:   3'- gaggaCGUuCGGGACGUa-GG----UGCGAG- -5'
23840 3' -57.6 NC_005261.1 + 10168 0.71 0.486716
Target:  5'- -aCCUGCGacGGCuCCUGCcgCCucugcCGCUCg -3'
miRNA:   3'- gaGGACGU--UCG-GGACGuaGGu----GCGAG- -5'
23840 3' -57.6 NC_005261.1 + 28460 0.71 0.486716
Target:  5'- uCUCCcgGCGGGCaCgaGCcggCCACGCUCg -3'
miRNA:   3'- -GAGGa-CGUUCG-GgaCGua-GGUGCGAG- -5'
23840 3' -57.6 NC_005261.1 + 103215 0.71 0.506171
Target:  5'- cCUCCUGCAggaagcgcgcgcAGUCCUccGcCGUCCGCGCg- -3'
miRNA:   3'- -GAGGACGU------------UCGGGA--C-GUAGGUGCGag -5'
23840 3' -57.6 NC_005261.1 + 130211 0.7 0.532944
Target:  5'- cCUCCUGCAggcggaagagcgucGGCCCgcucagGCG-CCGCGC-Ca -3'
miRNA:   3'- -GAGGACGU--------------UCGGGa-----CGUaGGUGCGaG- -5'
23840 3' -57.6 NC_005261.1 + 103183 0.7 0.535951
Target:  5'- gUCCUGCAcGCCC-GCggUCACGCg- -3'
miRNA:   3'- gAGGACGUuCGGGaCGuaGGUGCGag -5'
23840 3' -57.6 NC_005261.1 + 1638 0.7 0.556141
Target:  5'- gCUCCc-CGAGCCCcaGCG-CCGCGCUCu -3'
miRNA:   3'- -GAGGacGUUCGGGa-CGUaGGUGCGAG- -5'
23840 3' -57.6 NC_005261.1 + 51780 0.69 0.62814
Target:  5'- -gCCgGCGucGCCCUGCuggccguggCCAUGCUCg -3'
miRNA:   3'- gaGGaCGUu-CGGGACGua-------GGUGCGAG- -5'
23840 3' -57.6 NC_005261.1 + 81923 0.69 0.62814
Target:  5'- cCUCCUugaggugcgggaGCAGGCCCacGUucUCCACGCUa -3'
miRNA:   3'- -GAGGA------------CGUUCGGGa-CGu-AGGUGCGAg -5'
23840 3' -57.6 NC_005261.1 + 130668 0.71 0.477122
Target:  5'- gCUCCUcgGCGAGcCCCUGC--CCGCGCg- -3'
miRNA:   3'- -GAGGA--CGUUC-GGGACGuaGGUGCGag -5'
23840 3' -57.6 NC_005261.1 + 10519 0.72 0.430641
Target:  5'- --gCUGCGGGCCCcGCGg-CGCGCUCg -3'
miRNA:   3'- gagGACGUUCGGGaCGUagGUGCGAG- -5'
23840 3' -57.6 NC_005261.1 + 131065 0.72 0.421666
Target:  5'- -aCCUGCAGGCCgUGCGggacugCCugGC-Ca -3'
miRNA:   3'- gaGGACGUUCGGgACGUa-----GGugCGaG- -5'
23840 3' -57.6 NC_005261.1 + 122485 0.8 0.142906
Target:  5'- uCUCCUGCAAGCgcgucUCUGUGUCCGgGCUCu -3'
miRNA:   3'- -GAGGACGUUCG-----GGACGUAGGUgCGAG- -5'
23840 3' -57.6 NC_005261.1 + 106889 0.77 0.214933
Target:  5'- aCUCCUGC-AGCgCCUGCGucgUCCGCGC-Cg -3'
miRNA:   3'- -GAGGACGuUCG-GGACGU---AGGUGCGaG- -5'
23840 3' -57.6 NC_005261.1 + 107174 0.75 0.308702
Target:  5'- cCUCCgucucgGCGgcguAGCCCUGCAgCCGCGCg- -3'
miRNA:   3'- -GAGGa-----CGU----UCGGGACGUaGGUGCGag -5'
23840 3' -57.6 NC_005261.1 + 1362 0.75 0.323332
Target:  5'- uCUCCcGCGGGCCCUG-GUCCGCGUc- -3'
miRNA:   3'- -GAGGaCGUUCGGGACgUAGGUGCGag -5'
23840 3' -57.6 NC_005261.1 + 34067 0.75 0.323332
Target:  5'- cCUUCUGCcuGgCCUGCAUCCGcCGCUg -3'
miRNA:   3'- -GAGGACGuuCgGGACGUAGGU-GCGAg -5'
23840 3' -57.6 NC_005261.1 + 60398 0.73 0.369455
Target:  5'- cCUCCaugGCGccgggccggcccgGGCCCgggGCcgCCGCGCUCg -3'
miRNA:   3'- -GAGGa--CGU-------------UCGGGa--CGuaGGUGCGAG- -5'
23840 3' -57.6 NC_005261.1 + 100940 0.73 0.370274
Target:  5'- --gCUGCAGGCCC-GCGUCCACGg-- -3'
miRNA:   3'- gagGACGUUCGGGaCGUAGGUGCgag -5'
23840 3' -57.6 NC_005261.1 + 121914 0.73 0.404059
Target:  5'- -gUCUGCGcGCCgUGCGccgCCACGCUCu -3'
miRNA:   3'- gaGGACGUuCGGgACGUa--GGUGCGAG- -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.