miRNA display CGI


Results 1 - 20 of 38 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
11410 3' -60.8 NC_003085.1 + 25175 0.72 0.156889
Target:  5'- gGCCUGguggCGGUGGCGAugAGCgccaaCGUcGCCGa -3'
miRNA:   3'- -UGGACa---GCCACCGCU--UCG-----GCGaCGGC- -5'
11410 3' -60.8 NC_003085.1 + 28607 0.66 0.403564
Target:  5'- cGCCgGUgGuGUGGCGcucgcuGCUGCgGCCGg -3'
miRNA:   3'- -UGGaCAgC-CACCGCuu----CGGCGaCGGC- -5'
11410 3' -60.8 NC_003085.1 + 13715 0.66 0.402666
Target:  5'- aGCCUGUUccuguuccgucgaGGUcacGCGAAGCCGCccaacgggagGCCGu -3'
miRNA:   3'- -UGGACAG-------------CCAc--CGCUUCGGCGa---------CGGC- -5'
11410 3' -60.8 NC_003085.1 + 48515 0.66 0.377181
Target:  5'- gACCUccuucUCGGcGGCGAGGgCGCggGCCu -3'
miRNA:   3'- -UGGAc----AGCCaCCGCUUCgGCGa-CGGc -5'
11410 3' -60.8 NC_003085.1 + 12817 0.66 0.377181
Target:  5'- cCCUGaCGGUccgGGCGGaugcgcuguuGGCCGCcaaUGCCa -3'
miRNA:   3'- uGGACaGCCA---CCGCU----------UCGGCG---ACGGc -5'
11410 3' -60.8 NC_003085.1 + 40215 0.67 0.357756
Target:  5'- cACCUGgcuggcccucgccaUUGGUGGCGGGcucuucGCCGCcgggGCCu -3'
miRNA:   3'- -UGGAC--------------AGCCACCGCUU------CGGCGa---CGGc -5'
11410 3' -60.8 NC_003085.1 + 23020 0.67 0.343856
Target:  5'- uCCUGgcgcccagaGGUucgcgagcagugGGCGAAGCUGCcGCCGg -3'
miRNA:   3'- uGGACag-------CCA------------CCGCUUCGGCGaCGGC- -5'
11410 3' -60.8 NC_003085.1 + 12405 0.68 0.290774
Target:  5'- -gCUGcUCGacccGGCGggGCCGCUGCg- -3'
miRNA:   3'- ugGAC-AGCca--CCGCuuCGGCGACGgc -5'
11410 3' -60.8 NC_003085.1 + 931 0.68 0.281652
Target:  5'- uCCUggagcGUCGGccGCGuccgggugccagacAGGCCGCUGCCGg -3'
miRNA:   3'- uGGA-----CAGCCacCGC--------------UUCGGCGACGGC- -5'
11410 3' -60.8 NC_003085.1 + 31779 0.68 0.276835
Target:  5'- aGCgUG-CGGUugGGCGAAGCgGCccgGCCGc -3'
miRNA:   3'- -UGgACaGCCA--CCGCUUCGgCGa--CGGC- -5'
11410 3' -60.8 NC_003085.1 + 22774 0.72 0.160706
Target:  5'- cGCCg--CGGUGGCGAcggcagcggcaacGGCCGCUcCCGc -3'
miRNA:   3'- -UGGacaGCCACCGCU-------------UCGGCGAcGGC- -5'
11410 3' -60.8 NC_003085.1 + 17266 0.71 0.174501
Target:  5'- uACCUGcuUCGGagggaugGGCGAugaggaugcGCCGCUGCUGg -3'
miRNA:   3'- -UGGAC--AGCCa------CCGCUu--------CGGCGACGGC- -5'
11410 3' -60.8 NC_003085.1 + 27612 0.71 0.174501
Target:  5'- gGCCUGcgCGGUGuGUGGAGCCugggggGCUcGCCGc -3'
miRNA:   3'- -UGGACa-GCCAC-CGCUUCGG------CGA-CGGC- -5'
11410 3' -60.8 NC_003085.1 + 40343 0.7 0.209577
Target:  5'- uGCCUcaGUgGGcGGUGGgcaAGCCGCUGCUGc -3'
miRNA:   3'- -UGGA--CAgCCaCCGCU---UCGGCGACGGC- -5'
11410 3' -60.8 NC_003085.1 + 40481 0.7 0.209577
Target:  5'- uCCUGUCGcugcUGGCGGgcgucgucgAGCCGgaGCCGc -3'
miRNA:   3'- uGGACAGCc---ACCGCU---------UCGGCgaCGGC- -5'
11410 3' -60.8 NC_003085.1 + 20102 0.7 0.209577
Target:  5'- uGCCgca-GGUGGCGggGCUGgaGuCCGg -3'
miRNA:   3'- -UGGacagCCACCGCuuCGGCgaC-GGC- -5'
11410 3' -60.8 NC_003085.1 + 9137 0.69 0.270068
Target:  5'- cUCUGggagCGGcaccUGGCGGAGCuCGCcGCCGc -3'
miRNA:   3'- uGGACa---GCC----ACCGCUUCG-GCGaCGGC- -5'
11410 3' -60.8 NC_003085.1 + 47509 1.07 0.000333
Target:  5'- aACCUGUCGGUGGCGAAGCCGCUGCCGu -3'
miRNA:   3'- -UGGACAGCCACCGCUUCGGCGACGGC- -5'
11410 3' -60.8 NC_003085.1 + 25569 0.66 0.412614
Target:  5'- uUCUG-CGcGUGGac-GGCUGCUGCCGu -3'
miRNA:   3'- uGGACaGC-CACCgcuUCGGCGACGGC- -5'
11410 3' -60.8 NC_003085.1 + 27784 0.66 0.403564
Target:  5'- cACCUcGUCcuGGaGGCgcuGAAGCCggauGCUGCCGa -3'
miRNA:   3'- -UGGA-CAG--CCaCCG---CUUCGG----CGACGGC- -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.