miRNA display CGI


Results 1 - 19 of 19 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
16126 5' -54.9 NC_004065.1 + 28853 0.66 0.969427
Target:  5'- gCGCCgcuuGGU-GUCGGCgcUGCUGCGUgAc- -3'
miRNA:   3'- -GCGG----UCAuCAGCCG--ACGACGUAgUag -5'
16126 5' -54.9 NC_004065.1 + 68237 0.66 0.969131
Target:  5'- gCGUCGGcGGUgacgaggacggacCGGCUGCUgGCGUCGa- -3'
miRNA:   3'- -GCGGUCaUCA-------------GCCGACGA-CGUAGUag -5'
16126 5' -54.9 NC_004065.1 + 15418 0.66 0.962101
Target:  5'- aCGCCGGcGGUCGGCUcaauuacacgggagGCgGCuuUUAUCu -3'
miRNA:   3'- -GCGGUCaUCAGCCGA--------------CGaCGu-AGUAG- -5'
16126 5' -54.9 NC_004065.1 + 130652 0.66 0.959649
Target:  5'- aGUCGGgacAGUCGGCgccgucGCUGCcaacgcUCGUCg -3'
miRNA:   3'- gCGGUCa--UCAGCCGa-----CGACGu-----AGUAG- -5'
16126 5' -54.9 NC_004065.1 + 36155 0.66 0.955959
Target:  5'- uCGCUAGUccAG-CGGC-GCUGUGUCAg- -3'
miRNA:   3'- -GCGGUCA--UCaGCCGaCGACGUAGUag -5'
16126 5' -54.9 NC_004065.1 + 87705 0.66 0.955959
Target:  5'- cCGCCGGUAGUaucGCUGCcggucccgaUGCGUCc-- -3'
miRNA:   3'- -GCGGUCAUCAgc-CGACG---------ACGUAGuag -5'
16126 5' -54.9 NC_004065.1 + 125210 0.67 0.952046
Target:  5'- aCGCCAGUAGUUGuucacGCaGC-GCGUCAc- -3'
miRNA:   3'- -GCGGUCAUCAGC-----CGaCGaCGUAGUag -5'
16126 5' -54.9 NC_004065.1 + 155140 0.67 0.943538
Target:  5'- cCGCgAGUacgaGGUCGGCUGCgaccUGCc-CGUCu -3'
miRNA:   3'- -GCGgUCA----UCAGCCGACG----ACGuaGUAG- -5'
16126 5' -54.9 NC_004065.1 + 93296 0.68 0.918181
Target:  5'- gCGCCcauuuUGGUCaGCUGaccuaUGCGUCAUCg -3'
miRNA:   3'- -GCGGuc---AUCAGcCGACg----ACGUAGUAG- -5'
16126 5' -54.9 NC_004065.1 + 223373 0.68 0.906392
Target:  5'- uGCCAGggAGaCGGUaGCUGCG-CGUCu -3'
miRNA:   3'- gCGGUCa-UCaGCCGaCGACGUaGUAG- -5'
16126 5' -54.9 NC_004065.1 + 1378 0.68 0.905778
Target:  5'- aCGCCgaAGaAGauuucugcgaaaaUCaGCUGCUGCGUCGUCu -3'
miRNA:   3'- -GCGG--UCaUC-------------AGcCGACGACGUAGUAG- -5'
16126 5' -54.9 NC_004065.1 + 82336 0.69 0.893676
Target:  5'- aGCCGGUGGUgucGCUGaCgaucGCGUCGUCa -3'
miRNA:   3'- gCGGUCAUCAgc-CGAC-Ga---CGUAGUAG- -5'
16126 5' -54.9 NC_004065.1 + 30528 0.69 0.868535
Target:  5'- cCGCCGcGUgggaAGagacguacgugaucuUCGGCUGCcGCAUCGUCc -3'
miRNA:   3'- -GCGGU-CA----UC---------------AGCCGACGaCGUAGUAG- -5'
16126 5' -54.9 NC_004065.1 + 195531 0.69 0.865569
Target:  5'- uCGCCAaGUGGUUGGC-GUUGCGggcucCGUCc -3'
miRNA:   3'- -GCGGU-CAUCAGCCGaCGACGUa----GUAG- -5'
16126 5' -54.9 NC_004065.1 + 163607 0.7 0.842297
Target:  5'- gGUCGGUgaaGGUCGGgaUGCUGCG-CGUCu -3'
miRNA:   3'- gCGGUCA---UCAGCCg-ACGACGUaGUAG- -5'
16126 5' -54.9 NC_004065.1 + 10851 0.7 0.82583
Target:  5'- gGCgGGUGuGUCGGUcGCUGuCAUUAUCu -3'
miRNA:   3'- gCGgUCAU-CAGCCGaCGAC-GUAGUAG- -5'
16126 5' -54.9 NC_004065.1 + 136336 0.7 0.822451
Target:  5'- aGCCGGUGGgucaguUCGGCUGCaguggcaUGCggcgcgagaagaugGUCAUCg -3'
miRNA:   3'- gCGGUCAUC------AGCCGACG-------ACG--------------UAGUAG- -5'
16126 5' -54.9 NC_004065.1 + 96981 0.74 0.603703
Target:  5'- gCGCCGGccguccGUCGcGCUGCUGCGaCGUCu -3'
miRNA:   3'- -GCGGUCau----CAGC-CGACGACGUaGUAG- -5'
16126 5' -54.9 NC_004065.1 + 135091 1.1 0.003883
Target:  5'- gCGCCAGUAGUCGGCUGCUGCAUCAUCa -3'
miRNA:   3'- -GCGGUCAUCAGCCGACGACGUAGUAG- -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.