miRNA display CGI


Results 1 - 20 of 229 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
11563 3' -65.3 NC_003085.1 + 23343 1.13 0.000055
Target:  5'- cGGCCAAGCGCCGCCGGCCGCCGAGGCg -3'
miRNA:   3'- -CCGGUUCGCGGCGGCCGGCGGCUCCG- -5'
11563 3' -65.3 NC_003085.1 + 32850 0.83 0.0122
Target:  5'- aGGCCGcGCGCCGCgGGaCCGCCcggGAGGCc -3'
miRNA:   3'- -CCGGUuCGCGGCGgCC-GGCGG---CUCCG- -5'
11563 3' -65.3 NC_003085.1 + 34299 0.8 0.020161
Target:  5'- cGCCGAGCGUCGCgGGCagggcaCCGAGGCg -3'
miRNA:   3'- cCGGUUCGCGGCGgCCGgc----GGCUCCG- -5'
11563 3' -65.3 NC_003085.1 + 1507 0.8 0.022535
Target:  5'- cGGCCGGuGCGCCuCaCGGCCGCC-AGGCg -3'
miRNA:   3'- -CCGGUU-CGCGGcG-GCCGGCGGcUCCG- -5'
11563 3' -65.3 NC_003085.1 + 3568 0.8 0.022535
Target:  5'- cGGCCGGGCggcaaGCgCGCCucGCUGCCGAGGCg -3'
miRNA:   3'- -CCGGUUCG-----CG-GCGGc-CGGCGGCUCCG- -5'
11563 3' -65.3 NC_003085.1 + 42102 0.78 0.029664
Target:  5'- cGGCUggagagaAGGCGCCcucguccguGCCGacGCCGCCGGGGCa -3'
miRNA:   3'- -CCGG-------UUCGCGG---------CGGC--CGGCGGCUCCG- -5'
11563 3' -65.3 NC_003085.1 + 12393 0.77 0.038895
Target:  5'- gGGCCGGGUGCUGCUgcucgacccggcggGGCCGCUgcgcuccgagGAGGCu -3'
miRNA:   3'- -CCGGUUCGCGGCGG--------------CCGGCGG----------CUCCG- -5'
11563 3' -65.3 NC_003085.1 + 36832 0.77 0.039218
Target:  5'- cGCCGacGGCGagGCCGGCgGCCGAGGg -3'
miRNA:   3'- cCGGU--UCGCggCGGCCGgCGGCUCCg -5'
11563 3' -65.3 NC_003085.1 + 48858 0.77 0.040314
Target:  5'- aGCCccgcgaagAAGCGCCGCCaGUCGCCacGGGGCa -3'
miRNA:   3'- cCGG--------UUCGCGGCGGcCGGCGG--CUCCG- -5'
11563 3' -65.3 NC_003085.1 + 31349 0.76 0.041899
Target:  5'- cGGCCGucccgcccGCGCCGacaagaagcucgaccCCGGCCGCaaaGAGGCc -3'
miRNA:   3'- -CCGGUu-------CGCGGC---------------GGCCGGCGg--CUCCG- -5'
11563 3' -65.3 NC_003085.1 + 16335 0.76 0.042597
Target:  5'- gGGCgAAGCGCUGUCucuGGCCGacgacaagggcaCCGAGGCa -3'
miRNA:   3'- -CCGgUUCGCGGCGG---CCGGC------------GGCUCCG- -5'
11563 3' -65.3 NC_003085.1 + 30316 0.76 0.042597
Target:  5'- gGGCUggGCGCCGCgcaaGGCCugcGCCaGGGCc -3'
miRNA:   3'- -CCGGuuCGCGGCGg---CCGG---CGGcUCCG- -5'
11563 3' -65.3 NC_003085.1 + 11905 0.76 0.046387
Target:  5'- uGGCCAGGCGCUccacguuugccgaaGCCGggaacgcauuuggucGCCGCCuGGGCg -3'
miRNA:   3'- -CCGGUUCGCGG--------------CGGC---------------CGGCGGcUCCG- -5'
11563 3' -65.3 NC_003085.1 + 9003 0.76 0.047548
Target:  5'- uGGCCAcGCGCUGCacuuCGGaggCGUCGAGGCg -3'
miRNA:   3'- -CCGGUuCGCGGCG----GCCg--GCGGCUCCG- -5'
11563 3' -65.3 NC_003085.1 + 25383 0.75 0.04887
Target:  5'- uGGCCAccacGGCGUCguccaccugGCCGGCCGUCGcGGUg -3'
miRNA:   3'- -CCGGU----UCGCGG---------CGGCCGGCGGCuCCG- -5'
11563 3' -65.3 NC_003085.1 + 8440 0.75 0.053642
Target:  5'- cGGCCAgcAGCaGCCGUcccugucgcucuacaUgacgcgccagaaGGCCGCCGAGGCg -3'
miRNA:   3'- -CCGGU--UCG-CGGCG---------------G------------CCGGCGGCUCCG- -5'
11563 3' -65.3 NC_003085.1 + 19491 0.75 0.054529
Target:  5'- cGCCGaaccagguGGCGCCGCCcugGGCCuuGCUGGGGUa -3'
miRNA:   3'- cCGGU--------UCGCGGCGG---CCGG--CGGCUCCG- -5'
11563 3' -65.3 NC_003085.1 + 15272 0.75 0.057593
Target:  5'- cGGCCGAGCucacCCGCCGcGCCcgcgucaugcugGcCCGGGGCg -3'
miRNA:   3'- -CCGGUUCGc---GGCGGC-CGG------------C-GGCUCCG- -5'
11563 3' -65.3 NC_003085.1 + 942 0.74 0.059186
Target:  5'- cGGCCGcguccgGGUGCCagacagGCC-GCUGCCGGGGCa -3'
miRNA:   3'- -CCGGU------UCGCGG------CGGcCGGCGGCUCCG- -5'
11563 3' -65.3 NC_003085.1 + 7460 0.74 0.061489
Target:  5'- uGCCAguucacgcgGGCGCCGUCGGCCucguacuggagcggcGCCcaGGGGCg -3'
miRNA:   3'- cCGGU---------UCGCGGCGGCCGG---------------CGG--CUCCG- -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.