miRNA display CGI


Results 1 - 20 of 20 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
28413 3' -58.5 NC_005946.1 + 94029 0.66 0.700615
Target:  5'- aGGGGGAGgAGGCUGgugauugccaGGGCccgcagggacgCCCCGg -3'
miRNA:   3'- -CCCCUUCgUCCGGUa---------UCCGaa---------GGGGC- -5'
28413 3' -58.5 NC_005946.1 + 3877 0.67 0.682274
Target:  5'- uGGGGGuaagcaacacgAGCAuGUCGUGGaGgaUCCCCGg -3'
miRNA:   3'- -CCCCU-----------UCGUcCGGUAUC-CgaAGGGGC- -5'
28413 3' -58.5 NC_005946.1 + 42184 0.67 0.682274
Target:  5'- uGGGGccacuCGGGCCAcucGGGCccacgUCCCCa -3'
miRNA:   3'- -CCCCuuc--GUCCGGUa--UCCGa----AGGGGc -5'
28413 3' -58.5 NC_005946.1 + 12379 0.67 0.681251
Target:  5'- cGGGGAGcaaacgccaagguGUAcgacGGCCGUAGGUggaaCCCGg -3'
miRNA:   3'- -CCCCUU-------------CGU----CCGGUAUCCGaag-GGGC- -5'
28413 3' -58.5 NC_005946.1 + 19788 0.67 0.641103
Target:  5'- uGGaGAAGCAGGCCGUccuccugUCCCUGg -3'
miRNA:   3'- cCC-CUUCGUCCGGUAuccga--AGGGGC- -5'
28413 3' -58.5 NC_005946.1 + 83876 0.68 0.621472
Target:  5'- aGGGuGAGGgGGGCCGUGuGGCccgucuagaugaagCCCCu -3'
miRNA:   3'- -CCC-CUUCgUCCGGUAU-CCGaa------------GGGGc -5'
28413 3' -58.5 NC_005946.1 + 71762 0.68 0.619407
Target:  5'- uGGGGAAgGUgucucacucccugGGGCCGggAGGCaaCCCCa -3'
miRNA:   3'- -CCCCUU-CG-------------UCCGGUa-UCCGaaGGGGc -5'
28413 3' -58.5 NC_005946.1 + 24858 0.68 0.619407
Target:  5'- uGGGGAugauaGGCAGGUCuccucugAUGGGa-UCCCCc -3'
miRNA:   3'- -CCCCU-----UCGUCCGG-------UAUCCgaAGGGGc -5'
28413 3' -58.5 NC_005946.1 + 24702 0.68 0.610117
Target:  5'- uGGGGggGuUGGGCCcgggugGGGCcUCCUCc -3'
miRNA:   3'- -CCCCuuC-GUCCGGua----UCCGaAGGGGc -5'
28413 3' -58.5 NC_005946.1 + 49172 0.68 0.589531
Target:  5'- aGGGGggGCauAGGCCAagucaccaGGGUaaaggaUCCCCu -3'
miRNA:   3'- -CCCCuuCG--UCCGGUa-------UCCGa-----AGGGGc -5'
28413 3' -58.5 NC_005946.1 + 98078 0.68 0.579282
Target:  5'- cGGGGAgaccucccgcaaGGUcggAGGCCAcgaugGGGCUgauugCCCCu -3'
miRNA:   3'- -CCCCU------------UCG---UCCGGUa----UCCGAa----GGGGc -5'
28413 3' -58.5 NC_005946.1 + 59502 0.68 0.579282
Target:  5'- uGGGGuc-CAGGCCcgAGGCcuuggcgucUCCCCu -3'
miRNA:   3'- -CCCCuucGUCCGGuaUCCGa--------AGGGGc -5'
28413 3' -58.5 NC_005946.1 + 15840 0.68 0.568052
Target:  5'- uGGGAgucagcaAGCAGGacaCGgAGGCUUUCCUGa -3'
miRNA:   3'- cCCCU-------UCGUCCg--GUaUCCGAAGGGGC- -5'
28413 3' -58.5 NC_005946.1 + 14642 0.69 0.54275
Target:  5'- cGGGggG-AGGCCGacaaGGGCacccugcuggacgcuUUCCCCGg -3'
miRNA:   3'- cCCCuuCgUCCGGUa---UCCG---------------AAGGGGC- -5'
28413 3' -58.5 NC_005946.1 + 12741 0.7 0.489517
Target:  5'- aGGGAGGCAGGCU--GGaGCUgucugcUCCCUa -3'
miRNA:   3'- cCCCUUCGUCCGGuaUC-CGA------AGGGGc -5'
28413 3' -58.5 NC_005946.1 + 72664 0.7 0.461011
Target:  5'- uGGGGuucgugAGGgAGGCC--AGGCUcugucUCCCCGg -3'
miRNA:   3'- -CCCC------UUCgUCCGGuaUCCGA-----AGGGGC- -5'
28413 3' -58.5 NC_005946.1 + 69637 0.71 0.433407
Target:  5'- aGGGGAGuCAGGUCAgcccAGGggUCCCUGu -3'
miRNA:   3'- cCCCUUC-GUCCGGUa---UCCgaAGGGGC- -5'
28413 3' -58.5 NC_005946.1 + 2590 0.71 0.406788
Target:  5'- uGGGGGAGCAGacgugcGCCucGGGCUUCUgCa -3'
miRNA:   3'- -CCCCUUCGUC------CGGuaUCCGAAGGgGc -5'
28413 3' -58.5 NC_005946.1 + 95348 0.78 0.168655
Target:  5'- gGGGGAGGCAGGuucccCCcgAGGCgauuucCCCCGg -3'
miRNA:   3'- -CCCCUUCGUCC-----GGuaUCCGaa----GGGGC- -5'
28413 3' -58.5 NC_005946.1 + 72274 1.09 0.000994
Target:  5'- uGGGGAAGCAGGCCAUAGGCUUCCCCGc -3'
miRNA:   3'- -CCCCUUCGUCCGGUAUCCGAAGGGGC- -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.