miRNA display CGI


Results 1 - 20 of 85 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
11509 3' -54.7 NC_003085.1 + 620 0.65 0.730987
Target:  5'- uGGGCGCGCUC-GAGGcUGGcgcggaccucgucgAGGCGCu -3'
miRNA:   3'- gUUCGCGCGGGaCUUCcACU--------------UCUGCG- -5'
11509 3' -54.7 NC_003085.1 + 19689 0.66 0.723454
Target:  5'- -uGGCG-GCCCUGGAGGc----GCGCg -3'
miRNA:   3'- guUCGCgCGGGACUUCCacuucUGCG- -5'
11509 3' -54.7 NC_003085.1 + 5830 0.66 0.723454
Target:  5'- gAGGCGUcaGCCCUGcAGGUccggGAcugGGACGg -3'
miRNA:   3'- gUUCGCG--CGGGACuUCCA----CU---UCUGCg -5'
11509 3' -54.7 NC_003085.1 + 3704 0.66 0.723454
Target:  5'- --cGcCGCGUCCggugcUGguGGUGAcGACGCa -3'
miRNA:   3'- guuC-GCGCGGG-----ACuuCCACUuCUGCG- -5'
11509 3' -54.7 NC_003085.1 + 7208 0.66 0.723454
Target:  5'- ---cCGCGCCCUGccGcUGGAGuaGCGCg -3'
miRNA:   3'- guucGCGCGGGACuuCcACUUC--UGCG- -5'
11509 3' -54.7 NC_003085.1 + 45913 0.66 0.723454
Target:  5'- -cGGC-CGCCUUGAGcGUGGuccaagGGGCGCa -3'
miRNA:   3'- guUCGcGCGGGACUUcCACU------UCUGCG- -5'
11509 3' -54.7 NC_003085.1 + 15123 0.66 0.723454
Target:  5'- gGAGCGcCGCgCCgcguGGUGcgacgagcacGAGACGCa -3'
miRNA:   3'- gUUCGC-GCG-GGacuuCCAC----------UUCUGCG- -5'
11509 3' -54.7 NC_003085.1 + 28505 0.66 0.723454
Target:  5'- --cGCGCGCCauucaGgcGGUG--GACGCg -3'
miRNA:   3'- guuCGCGCGGga---CuuCCACuuCUGCG- -5'
11509 3' -54.7 NC_003085.1 + 27369 0.66 0.723454
Target:  5'- -cAGCGCGUCUggcuGGUGGA-ACGCg -3'
miRNA:   3'- guUCGCGCGGGacuuCCACUUcUGCG- -5'
11509 3' -54.7 NC_003085.1 + 11888 0.66 0.723454
Target:  5'- uGAGCGCGCCgaGuucauGGcc-AGGCGCu -3'
miRNA:   3'- gUUCGCGCGGgaCuu---CCacuUCUGCG- -5'
11509 3' -54.7 NC_003085.1 + 11301 0.66 0.723454
Target:  5'- gAAGCGCGCgCUGGcgcuuguggacgAGGacugGAAGuccCGCg -3'
miRNA:   3'- gUUCGCGCGgGACU------------UCCa---CUUCu--GCG- -5'
11509 3' -54.7 NC_003085.1 + 33082 0.66 0.712614
Target:  5'- cCAGGaCGUGCCCgcGGAGGcucacuccUGGGuGGCGCu -3'
miRNA:   3'- -GUUC-GCGCGGGa-CUUCC--------ACUU-CUGCG- -5'
11509 3' -54.7 NC_003085.1 + 25612 0.66 0.712614
Target:  5'- cCAAGCGCGaCgaGGAGGaGAcgacgaaggccGGGCGCc -3'
miRNA:   3'- -GUUCGCGCgGgaCUUCCaCU-----------UCUGCG- -5'
11509 3' -54.7 NC_003085.1 + 985 0.66 0.701692
Target:  5'- gAGGCGCuuGCCgaGAgcacgccaAGGcUGAGGugGCc -3'
miRNA:   3'- gUUCGCG--CGGgaCU--------UCC-ACUUCugCG- -5'
11509 3' -54.7 NC_003085.1 + 32277 0.66 0.700596
Target:  5'- cCAAGCGCGCggaacucCCggcaGAGGUGGuucaGGAgGCa -3'
miRNA:   3'- -GUUCGCGCG-------GGac--UUCCACU----UCUgCG- -5'
11509 3' -54.7 NC_003085.1 + 26470 0.66 0.700596
Target:  5'- -cGGCGCGCgcaccucuggcugCUUGggGGUGGcAGACu- -3'
miRNA:   3'- guUCGCGCG-------------GGACuuCCACU-UCUGcg -5'
11509 3' -54.7 NC_003085.1 + 26201 0.66 0.690701
Target:  5'- aCGAGCuGCGCCUUGugcgcgGgcGGCGCg -3'
miRNA:   3'- -GUUCG-CGCGGGACuucca-CuuCUGCG- -5'
11509 3' -54.7 NC_003085.1 + 32637 0.66 0.690701
Target:  5'- uCAAGCGCaGCCUcc-AGGacAAGGCGCa -3'
miRNA:   3'- -GUUCGCG-CGGGacuUCCacUUCUGCG- -5'
11509 3' -54.7 NC_003085.1 + 16111 0.66 0.690701
Target:  5'- gAAGgGCGacauCCUGGAGGUc--GACGCc -3'
miRNA:   3'- gUUCgCGCg---GGACUUCCAcuuCUGCG- -5'
11509 3' -54.7 NC_003085.1 + 45967 0.66 0.679651
Target:  5'- -cAGCGuCGCCUUGggGcG-GcAGAUGCg -3'
miRNA:   3'- guUCGC-GCGGGACuuC-CaCuUCUGCG- -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.