miRNA display CGI


Results 1 - 20 of 35 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
3005 3' -56.3 NC_001493.1 + 3787 0.66 0.913349
Target:  5'- gCGAGgcgCGGCGGUuucgaggugaugugCGGGUccauccuccUCCCCGg -3'
miRNA:   3'- gGCUCagaGCUGCUA--------------GCCCA---------AGGGGC- -5'
3005 3' -56.3 NC_001493.1 + 4625 0.78 0.327901
Target:  5'- aCCGAG-CUCGACGAUCGGc-UCuCCCGc -3'
miRNA:   3'- -GGCUCaGAGCUGCUAGCCcaAG-GGGC- -5'
3005 3' -56.3 NC_001493.1 + 7852 1.12 0.002181
Target:  5'- aCCGAGUCUCGACGAUCGGGUUCCCCGg -3'
miRNA:   3'- -GGCUCAGAGCUGCUAGCCCAAGGGGC- -5'
3005 3' -56.3 NC_001493.1 + 9092 0.7 0.740872
Target:  5'- cCCGGGUCUUuugcGCGGUCaacgggagccgcgGGGUcaUCCCCGc -3'
miRNA:   3'- -GGCUCAGAGc---UGCUAG-------------CCCA--AGGGGC- -5'
3005 3' -56.3 NC_001493.1 + 9604 0.74 0.534258
Target:  5'- uCCGAGUCggUGACGG-CGGGUgaCUCCGg -3'
miRNA:   3'- -GGCUCAGa-GCUGCUaGCCCAa-GGGGC- -5'
3005 3' -56.3 NC_001493.1 + 9808 0.66 0.926026
Target:  5'- gUCGAG-CUCGGCG--CGGGcgcaUCCCUGc -3'
miRNA:   3'- -GGCUCaGAGCUGCuaGCCCa---AGGGGC- -5'
3005 3' -56.3 NC_001493.1 + 9952 0.66 0.926026
Target:  5'- gCCGAG-CUCGACGucccCGcGGUUCgagcgcuggucuCCCGu -3'
miRNA:   3'- -GGCUCaGAGCUGCua--GC-CCAAG------------GGGC- -5'
3005 3' -56.3 NC_001493.1 + 10813 0.76 0.389895
Target:  5'- cCCGGGgagCUCGcGCGAUCGGGcgcgUCCCGa -3'
miRNA:   3'- -GGCUCa--GAGC-UGCUAGCCCaa--GGGGC- -5'
3005 3' -56.3 NC_001493.1 + 16262 0.72 0.633386
Target:  5'- -gGAGUCUCGAgCGGUCGag--CCCCGg -3'
miRNA:   3'- ggCUCAGAGCU-GCUAGCccaaGGGGC- -5'
3005 3' -56.3 NC_001493.1 + 17504 0.67 0.883734
Target:  5'- aCCGAGUCUCGA-GAcccUCGuGGacgaaUUCUCCa -3'
miRNA:   3'- -GGCUCAGAGCUgCU---AGC-CC-----AAGGGGc -5'
3005 3' -56.3 NC_001493.1 + 26396 0.67 0.883734
Target:  5'- cUCGGGUCgacccaGACGGgccCGGGUUucggCCCCa -3'
miRNA:   3'- -GGCUCAGag----CUGCUa--GCCCAA----GGGGc -5'
3005 3' -56.3 NC_001493.1 + 30515 0.71 0.67339
Target:  5'- gCUGGGaaaucUCUCGACGAacUCGGGg-CCCUGg -3'
miRNA:   3'- -GGCUC-----AGAGCUGCU--AGCCCaaGGGGC- -5'
3005 3' -56.3 NC_001493.1 + 33271 0.67 0.876811
Target:  5'- cCCGc--CUCGGCGAUCaGGUUCgCUCGc -3'
miRNA:   3'- -GGCucaGAGCUGCUAGcCCAAG-GGGC- -5'
3005 3' -56.3 NC_001493.1 + 49718 0.71 0.67339
Target:  5'- gCGcGUCgaacgCGGCGAggaaaUCGGGUgUCCCCGu -3'
miRNA:   3'- gGCuCAGa----GCUGCU-----AGCCCA-AGGGGC- -5'
3005 3' -56.3 NC_001493.1 + 57335 0.71 0.67339
Target:  5'- cCCGA-UCcUGACGAUCGaGGUUCCCg- -3'
miRNA:   3'- -GGCUcAGaGCUGCUAGC-CCAAGGGgc -5'
3005 3' -56.3 NC_001493.1 + 58213 0.77 0.380929
Target:  5'- cCCGAGUCUC-ACGGUCGGGcgauguaUUUUCCGg -3'
miRNA:   3'- -GGCUCAGAGcUGCUAGCCC-------AAGGGGC- -5'
3005 3' -56.3 NC_001493.1 + 62314 0.68 0.831062
Target:  5'- aCCGGGUCggUCcACGGgggcuaucagUGGGUUCUCCGg -3'
miRNA:   3'- -GGCUCAG--AGcUGCUa---------GCCCAAGGGGC- -5'
3005 3' -56.3 NC_001493.1 + 69590 0.67 0.862342
Target:  5'- gCCGcGGcCUCGgcucguucGCGAUCGGGgacacgucccgcUUCCCCa -3'
miRNA:   3'- -GGC-UCaGAGC--------UGCUAGCCC------------AAGGGGc -5'
3005 3' -56.3 NC_001493.1 + 82460 0.68 0.814355
Target:  5'- gCGAGacgCUCuACGAUCGGGUcgaacucguUCUCCa -3'
miRNA:   3'- gGCUCa--GAGcUGCUAGCCCA---------AGGGGc -5'
3005 3' -56.3 NC_001493.1 + 83880 0.67 0.876811
Target:  5'- gCCGuguucGUC-CGGCGcgCGGcGcUCCCCGg -3'
miRNA:   3'- -GGCu----CAGaGCUGCuaGCC-CaAGGGGC- -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.