miRNA display CGI


Results 1 - 20 of 32 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
23513 5' -58.5 NC_005259.1 + 36145 0.66 0.660704
Target:  5'- gCUGUCCGuCGC-CAUgGCCacgGUGACGAc -3'
miRNA:   3'- -GGCAGGCcGCGaGUAgUGG---CGCUGCU- -5'
23513 5' -58.5 NC_005259.1 + 20059 0.66 0.650304
Target:  5'- aUGUCCgcugcgguGGCGgUCGUCACCaCGuCGAa -3'
miRNA:   3'- gGCAGG--------CCGCgAGUAGUGGcGCuGCU- -5'
23513 5' -58.5 NC_005259.1 + 40761 0.66 0.650304
Target:  5'- aCGUCUGGUcgagcaucuGCUCGUCG--GCGAUGAc -3'
miRNA:   3'- gGCAGGCCG---------CGAGUAGUggCGCUGCU- -5'
23513 5' -58.5 NC_005259.1 + 60595 0.66 0.650304
Target:  5'- -aGUCgGGUGC-CGUCAUCgagcagcacagGCGGCGAg -3'
miRNA:   3'- ggCAGgCCGCGaGUAGUGG-----------CGCUGCU- -5'
23513 5' -58.5 NC_005259.1 + 27065 0.66 0.650304
Target:  5'- aCgGUCaCGGCGa-CAUCGCCgacauucuGCGGCGGc -3'
miRNA:   3'- -GgCAG-GCCGCgaGUAGUGG--------CGCUGCU- -5'
23513 5' -58.5 NC_005259.1 + 22697 0.66 0.650304
Target:  5'- cCCG-CCGuCGC-CGUCACCGgcuCGAUGAg -3'
miRNA:   3'- -GGCaGGCcGCGaGUAGUGGC---GCUGCU- -5'
23513 5' -58.5 NC_005259.1 + 42502 0.66 0.639889
Target:  5'- cCCGUCCGGCGgUguggccagcagcCGUCcgGCCcCGAUGGg -3'
miRNA:   3'- -GGCAGGCCGCgA------------GUAG--UGGcGCUGCU- -5'
23513 5' -58.5 NC_005259.1 + 14039 0.66 0.639889
Target:  5'- aUCGagCGGCaGCgCAUCGuCgGCGACGAg -3'
miRNA:   3'- -GGCagGCCG-CGaGUAGU-GgCGCUGCU- -5'
23513 5' -58.5 NC_005259.1 + 13045 0.66 0.639889
Target:  5'- aCGUUCGGCcCgu-UCugCGCGAUGGu -3'
miRNA:   3'- gGCAGGCCGcGaguAGugGCGCUGCU- -5'
23513 5' -58.5 NC_005259.1 + 17022 0.66 0.629468
Target:  5'- aCCGccaUCCucGGCGCUggCAUCgacaACCGCGACc- -3'
miRNA:   3'- -GGC---AGG--CCGCGA--GUAG----UGGCGCUGcu -5'
23513 5' -58.5 NC_005259.1 + 42446 0.67 0.598248
Target:  5'- gUGUUCGGCGUccaacaGUCGCCGacuaCGGCGAg -3'
miRNA:   3'- gGCAGGCCGCGag----UAGUGGC----GCUGCU- -5'
23513 5' -58.5 NC_005259.1 + 41645 0.67 0.571372
Target:  5'- gCCGgucugCgGGCGCUCGgugagcgggaucugCACCGCGuGCGu -3'
miRNA:   3'- -GGCa----GgCCGCGAGUa-------------GUGGCGC-UGCu -5'
23513 5' -58.5 NC_005259.1 + 14723 0.67 0.56726
Target:  5'- aCG-CC-GCGCUCGUCGCCGaGAUGu -3'
miRNA:   3'- gGCaGGcCGCGAGUAGUGGCgCUGCu -5'
23513 5' -58.5 NC_005259.1 + 23309 0.67 0.56726
Target:  5'- -gGUCCGGCGCggucggUGUCGCCGaGcCGGa -3'
miRNA:   3'- ggCAGGCCGCGa-----GUAGUGGCgCuGCU- -5'
23513 5' -58.5 NC_005259.1 + 49609 0.67 0.56726
Target:  5'- aCC-UCgGGCaGCUCAUCAUCGUcaucGGCGGc -3'
miRNA:   3'- -GGcAGgCCG-CGAGUAGUGGCG----CUGCU- -5'
23513 5' -58.5 NC_005259.1 + 56566 0.68 0.557016
Target:  5'- -gGUUCGGUGaUCGUCgcgGCUGCGAUGAg -3'
miRNA:   3'- ggCAGGCCGCgAGUAG---UGGCGCUGCU- -5'
23513 5' -58.5 NC_005259.1 + 45518 0.68 0.546826
Target:  5'- aCCGcgCCGGUGUUgGcCGCCGUGGCu- -3'
miRNA:   3'- -GGCa-GGCCGCGAgUaGUGGCGCUGcu -5'
23513 5' -58.5 NC_005259.1 + 9503 0.68 0.536696
Target:  5'- -aGgaaCGuGCGCUCGUCGCgCGCGuCGAc -3'
miRNA:   3'- ggCag-GC-CGCGAGUAGUG-GCGCuGCU- -5'
23513 5' -58.5 NC_005259.1 + 17352 0.68 0.534677
Target:  5'- gCCGUCgaggucggcggcuCGGCGCUgGUCguggucgACUGCGACa- -3'
miRNA:   3'- -GGCAG-------------GCCGCGAgUAG-------UGGCGCUGcu -5'
23513 5' -58.5 NC_005259.1 + 24053 0.68 0.526631
Target:  5'- gUCGUCggcgCGGUGCUCAaucucgugCACCGCGA-GAu -3'
miRNA:   3'- -GGCAG----GCCGCGAGUa-------GUGGCGCUgCU- -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.