miRNA display CGI


Results 1 - 20 of 24 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
13438 3' -62.2 NC_003409.1 + 111840 0.66 0.595082
Target:  5'- gGGUUUccUCGCGucggccacCGCGGGGGCGGC-CGu -3'
miRNA:   3'- gUCGGA--AGCGU--------GCGCCUCCGCCGcGU- -5'
13438 3' -62.2 NC_003409.1 + 113593 0.66 0.575335
Target:  5'- -cGCCcgUCGCugGCGcAGGCGaucgccguguuGCGCGu -3'
miRNA:   3'- guCGGa-AGCGugCGCcUCCGC-----------CGCGU- -5'
13438 3' -62.2 NC_003409.1 + 134492 0.66 0.573367
Target:  5'- gCAGCCUgacuacagagggUGUcCcCGGGGGCGGUGCGc -3'
miRNA:   3'- -GUCGGAa-----------GCGuGcGCCUCCGCCGCGU- -5'
13438 3' -62.2 NC_003409.1 + 42191 0.67 0.55574
Target:  5'- gCAGCUUcaUgGcCACGUGGGGGUGGCa-- -3'
miRNA:   3'- -GUCGGA--AgC-GUGCGCCUCCGCCGcgu -5'
13438 3' -62.2 NC_003409.1 + 25922 0.67 0.546014
Target:  5'- --aUCUUCGUuCGCGGuuGGcCGGCGCGg -3'
miRNA:   3'- gucGGAAGCGuGCGCCu-CC-GCCGCGU- -5'
13438 3' -62.2 NC_003409.1 + 109999 0.67 0.526733
Target:  5'- -cGCCUccCGC-CGCGGcgucuuGGGCGGCGg- -3'
miRNA:   3'- guCGGAa-GCGuGCGCC------UCCGCCGCgu -5'
13438 3' -62.2 NC_003409.1 + 109347 0.67 0.526733
Target:  5'- -cGCCgcccCGgACGCguacccaagGGAGGUGGCGCu -3'
miRNA:   3'- guCGGaa--GCgUGCG---------CCUCCGCCGCGu -5'
13438 3' -62.2 NC_003409.1 + 94310 0.68 0.479751
Target:  5'- gCGGCCUUUGgACGCgagGGAGG-GGUGUc -3'
miRNA:   3'- -GUCGGAAGCgUGCG---CCUCCgCCGCGu -5'
13438 3' -62.2 NC_003409.1 + 94335 0.68 0.479751
Target:  5'- gCAGCCcgacaaccgGCugGgGGGGGCGGUGUu -3'
miRNA:   3'- -GUCGGaag------CGugCgCCUCCGCCGCGu -5'
13438 3' -62.2 NC_003409.1 + 109524 0.68 0.476996
Target:  5'- gGGCCagCGCcaccucccuuggguACGCGuccGGGGCGGCGUg -3'
miRNA:   3'- gUCGGaaGCG--------------UGCGC---CUCCGCCGCGu -5'
13438 3' -62.2 NC_003409.1 + 52165 0.68 0.470598
Target:  5'- aAGCUcagUCGCACG-GGGGGUGGCcugugGCGu -3'
miRNA:   3'- gUCGGa--AGCGUGCgCCUCCGCCG-----CGU- -5'
13438 3' -62.2 NC_003409.1 + 111135 0.68 0.470598
Target:  5'- cCGGCCUUCGCccucagucCGgGGGGGCuggaGCGCc -3'
miRNA:   3'- -GUCGGAAGCGu-------GCgCCUCCGc---CGCGu -5'
13438 3' -62.2 NC_003409.1 + 52071 0.68 0.470598
Target:  5'- gAGCCUcgagCGcCAUGUGGuGaGUGGCGCGg -3'
miRNA:   3'- gUCGGAa---GC-GUGCGCCuC-CGCCGCGU- -5'
13438 3' -62.2 NC_003409.1 + 59024 0.68 0.452563
Target:  5'- uGGUCUUUGCugG-GaGGGGCGGCGg- -3'
miRNA:   3'- gUCGGAAGCGugCgC-CUCCGCCGCgu -5'
13438 3' -62.2 NC_003409.1 + 15868 0.68 0.443688
Target:  5'- uCGGCCcuaaUCGCuACGUGGcaAGGUGGUGUAc -3'
miRNA:   3'- -GUCGGa---AGCG-UGCGCC--UCCGCCGCGU- -5'
13438 3' -62.2 NC_003409.1 + 53229 0.69 0.434912
Target:  5'- -cGUgUUCGCGCGaCGGcGGCGGaGCAa -3'
miRNA:   3'- guCGgAAGCGUGC-GCCuCCGCCgCGU- -5'
13438 3' -62.2 NC_003409.1 + 107421 0.69 0.409201
Target:  5'- cUAGCCUUCGCGgugggagccuguUGCaGGAGGgUGGCGaCAc -3'
miRNA:   3'- -GUCGGAAGCGU------------GCG-CCUCC-GCCGC-GU- -5'
13438 3' -62.2 NC_003409.1 + 27075 0.69 0.400844
Target:  5'- -cGCCUgUCGUACGCgGGGGGUGGgGgAu -3'
miRNA:   3'- guCGGA-AGCGUGCG-CCUCCGCCgCgU- -5'
13438 3' -62.2 NC_003409.1 + 37958 0.7 0.376435
Target:  5'- aGGCCaggCGCGCcuGCGcagcucaaGAGGCGGCGCc -3'
miRNA:   3'- gUCGGaa-GCGUG--CGC--------CUCCGCCGCGu -5'
13438 3' -62.2 NC_003409.1 + 30489 0.71 0.330708
Target:  5'- cCAGUggUUUCGCGCucGCGGAGGCuGGCGa- -3'
miRNA:   3'- -GUCG--GAAGCGUG--CGCCUCCG-CCGCgu -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.