miRNA display CGI


Results 1 - 18 of 18 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
13455 5' -58.4 NC_003409.1 + 74371 0.66 0.82235
Target:  5'- gUCCAGuGGCGGGGguaacgacaguagCgGGGGuuGUGc -3'
miRNA:   3'- -GGGUCuCCGCUCUaa-----------GgUCCCggCAC- -5'
13455 5' -58.4 NC_003409.1 + 30964 0.66 0.818968
Target:  5'- gCUGGAGGCGGGGgugggUUCAgcGGGUgGUGc -3'
miRNA:   3'- gGGUCUCCGCUCUa----AGGU--CCCGgCAC- -5'
13455 5' -58.4 NC_003409.1 + 107983 0.66 0.818968
Target:  5'- aCUCuGuGGCaGGGAgcUCCAGGGgCGUGc -3'
miRNA:   3'- -GGGuCuCCG-CUCUa-AGGUCCCgGCAC- -5'
13455 5' -58.4 NC_003409.1 + 128523 0.66 0.774639
Target:  5'- gUCCAGuaGGGgGAGAUgucacuUCCAGgcaGGCUGUGc -3'
miRNA:   3'- -GGGUC--UCCgCUCUA------AGGUC---CCGGCAC- -5'
13455 5' -58.4 NC_003409.1 + 87304 0.67 0.765368
Target:  5'- cCCCAGAGGUGgcAGAgcgaCAGGaGCCa-- -3'
miRNA:   3'- -GGGUCUCCGC--UCUaag-GUCC-CGGcac -5'
13455 5' -58.4 NC_003409.1 + 93690 0.67 0.765368
Target:  5'- gCCCAGAGGUaGGAUgguugauguaCuGGGCgGUGg -3'
miRNA:   3'- -GGGUCUCCGcUCUAag--------GuCCCGgCAC- -5'
13455 5' -58.4 NC_003409.1 + 48720 0.67 0.755981
Target:  5'- --gGGuAGGCGAGGgcacgcUCCGGGGCUGa- -3'
miRNA:   3'- gggUC-UCCGCUCUa-----AGGUCCCGGCac -5'
13455 5' -58.4 NC_003409.1 + 68811 0.67 0.736898
Target:  5'- aCUCGcGAuGGCcucGGUUCCAGGGCUGUa -3'
miRNA:   3'- -GGGU-CU-CCGcu-CUAAGGUCCCGGCAc -5'
13455 5' -58.4 NC_003409.1 + 95594 0.67 0.717461
Target:  5'- cCUCAGAGGCGucc-UCCAGcGGCCc-- -3'
miRNA:   3'- -GGGUCUCCGCucuaAGGUC-CCGGcac -5'
13455 5' -58.4 NC_003409.1 + 34894 0.68 0.707632
Target:  5'- -aCAGAGGCGGGAagaUUCU-GGGCCc-- -3'
miRNA:   3'- ggGUCUCCGCUCU---AAGGuCCCGGcac -5'
13455 5' -58.4 NC_003409.1 + 18801 0.68 0.687795
Target:  5'- gCCUGGGGGUGGcuauGGUUCCAuGGG-CGUGa -3'
miRNA:   3'- -GGGUCUCCGCU----CUAAGGU-CCCgGCAC- -5'
13455 5' -58.4 NC_003409.1 + 87960 0.68 0.677805
Target:  5'- aCCAGAuGaGUGAGggUCUgaAGGGCCGg- -3'
miRNA:   3'- gGGUCU-C-CGCUCuaAGG--UCCCGGCac -5'
13455 5' -58.4 NC_003409.1 + 128627 0.68 0.677805
Target:  5'- --aAGAGGCGuuGUUCCAGGGUgCGg- -3'
miRNA:   3'- gggUCUCCGCucUAAGGUCCCG-GCac -5'
13455 5' -58.4 NC_003409.1 + 12595 0.69 0.64765
Target:  5'- aCCCAGAGGCGG--UUCCgaugGGGGCa--- -3'
miRNA:   3'- -GGGUCUCCGCUcuAAGG----UCCCGgcac -5'
13455 5' -58.4 NC_003409.1 + 35175 0.69 0.627473
Target:  5'- gUCCaAGGGGa-GGGUUCUGGGGCCGg- -3'
miRNA:   3'- -GGG-UCUCCgcUCUAAGGUCCCGGCac -5'
13455 5' -58.4 NC_003409.1 + 82435 0.79 0.182236
Target:  5'- gCCCAGgggGGGUGGGAUUCCcuGGGCCGa- -3'
miRNA:   3'- -GGGUC---UCCGCUCUAAGGu-CCCGGCac -5'
13455 5' -58.4 NC_003409.1 + 24158 0.98 0.009276
Target:  5'- aCCCAGAGGCGAGAUUCCAGGcCCGUGa -3'
miRNA:   3'- -GGGUCUCCGCUCUAAGGUCCcGGCAC- -5'
13455 5' -58.4 NC_003409.1 + 118798 1.1 0.001292
Target:  5'- aCCCAGAGGCGAGAUUCCAGGGCCGUGa -3'
miRNA:   3'- -GGGUCUCCGCUCUAAGGUCCCGGCAC- -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.