miRNA display CGI


Results 1 - 20 of 49 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
28151 3' -58.2 NC_005887.1 + 40743 0.65 0.497711
Target:  5'- -uGCGCgCGCGCcaggugcaggauggUGCGGCCgguGAUCGGc -3'
miRNA:   3'- guUGCG-GCGUG--------------ACGCCGGg--UUAGCCu -5'
28151 3' -58.2 NC_005887.1 + 37497 0.66 0.487385
Target:  5'- aAGCGCCGCGCUccacuccgcaccugGCGuGCaggCAGUCGcGAc -3'
miRNA:   3'- gUUGCGGCGUGA--------------CGC-CGg--GUUAGC-CU- -5'
28151 3' -58.2 NC_005887.1 + 27406 0.66 0.480217
Target:  5'- -cGCGCCGCuGCgcGUGGCgCAGUCGa- -3'
miRNA:   3'- guUGCGGCG-UGa-CGCCGgGUUAGCcu -5'
28151 3' -58.2 NC_005887.1 + 11428 0.66 0.480217
Target:  5'- uGACGCCcGCGCUGaucaGGCUCAGUg--- -3'
miRNA:   3'- gUUGCGG-CGUGACg---CCGGGUUAgccu -5'
28151 3' -58.2 NC_005887.1 + 24888 0.66 0.474115
Target:  5'- cCGAUGCCGCGCgcuCGGUCUucuucgcagcagccgGAUCGGc -3'
miRNA:   3'- -GUUGCGGCGUGac-GCCGGG---------------UUAGCCu -5'
28151 3' -58.2 NC_005887.1 + 372 0.66 0.470068
Target:  5'- -uACGCgCGCACcGCGGCCUcgcuGAUCa-- -3'
miRNA:   3'- guUGCG-GCGUGaCGCCGGG----UUAGccu -5'
28151 3' -58.2 NC_005887.1 + 1385 0.66 0.460029
Target:  5'- -cGCGUCGCGCUcGUucaucaugGGCCCGcUCGGc -3'
miRNA:   3'- guUGCGGCGUGA-CG--------CCGGGUuAGCCu -5'
28151 3' -58.2 NC_005887.1 + 3169 0.66 0.450105
Target:  5'- aCGACuGCCGCuuuuccuucaUGCGGCCgUggUCGGc -3'
miRNA:   3'- -GUUG-CGGCGug--------ACGCCGG-GuuAGCCu -5'
28151 3' -58.2 NC_005887.1 + 11552 0.66 0.450105
Target:  5'- uCGGCGCgcagCGCGCgGCGGUCgCGgaAUCGGGc -3'
miRNA:   3'- -GUUGCG----GCGUGaCGCCGG-GU--UAGCCU- -5'
28151 3' -58.2 NC_005887.1 + 16199 0.66 0.449119
Target:  5'- aGAgGCCGCGCUGCgaccggacacgcaGGUCaCGAUCGa- -3'
miRNA:   3'- gUUgCGGCGUGACG-------------CCGG-GUUAGCcu -5'
28151 3' -58.2 NC_005887.1 + 25544 0.67 0.444208
Target:  5'- ---aGCCGcCGCUGCGuuguGCCCAagcaacacaaaaugaAUCGGGu -3'
miRNA:   3'- guugCGGC-GUGACGC----CGGGU---------------UAGCCU- -5'
28151 3' -58.2 NC_005887.1 + 5482 0.67 0.4403
Target:  5'- -cGCGCCGguCGCUGCGGCgCCGcccgcCGGu -3'
miRNA:   3'- guUGCGGC--GUGACGCCG-GGUua---GCCu -5'
28151 3' -58.2 NC_005887.1 + 18483 0.67 0.4403
Target:  5'- uCAGCGUCGUGCUGacgaCGGCgCCGcggcguaggccAUCGGGu -3'
miRNA:   3'- -GUUGCGGCGUGAC----GCCG-GGU-----------UAGCCU- -5'
28151 3' -58.2 NC_005887.1 + 3006 0.67 0.4403
Target:  5'- uCAACG-CGC-CUGCGGCCagcgccgCGGGc -3'
miRNA:   3'- -GUUGCgGCGuGACGCCGGguua---GCCU- -5'
28151 3' -58.2 NC_005887.1 + 29186 0.67 0.430618
Target:  5'- gCAACGCCGUACgaaaccCGGCUC-GUCGcGAc -3'
miRNA:   3'- -GUUGCGGCGUGac----GCCGGGuUAGC-CU- -5'
28151 3' -58.2 NC_005887.1 + 25724 0.67 0.430618
Target:  5'- uGGCGaCGCGCUGCGGCUgg--CGGu -3'
miRNA:   3'- gUUGCgGCGUGACGCCGGguuaGCCu -5'
28151 3' -58.2 NC_005887.1 + 7126 0.67 0.430618
Target:  5'- gCGGgGCgGCGCUGCGGCgCCGuUCa-- -3'
miRNA:   3'- -GUUgCGgCGUGACGCCG-GGUuAGccu -5'
28151 3' -58.2 NC_005887.1 + 8884 0.67 0.430618
Target:  5'- gCGACGCCGUACgcgcucGCGGaccugacgaCCGAggaCGGAa -3'
miRNA:   3'- -GUUGCGGCGUGa-----CGCCg--------GGUUa--GCCU- -5'
28151 3' -58.2 NC_005887.1 + 33215 0.67 0.427738
Target:  5'- -cGCGCCGCACUGgcacucggucgcgcCGuGCUCcuUCGGGa -3'
miRNA:   3'- guUGCGGCGUGAC--------------GC-CGGGuuAGCCU- -5'
28151 3' -58.2 NC_005887.1 + 25134 0.67 0.421062
Target:  5'- cCAGCGCCGCAgCUGCaGGUC--GUCGa- -3'
miRNA:   3'- -GUUGCGGCGU-GACG-CCGGguUAGCcu -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.