miRNA display CGI


Results 1 - 16 of 16 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
18419 3' -53.8 NC_004681.1 + 7909 0.67 0.870324
Target:  5'- uUCCGGCcucAUCGggGAggUCGGgaGUCUGGg -3'
miRNA:   3'- -GGGUUG---UAGCaaCU--GGCCgaCAGGCC- -5'
18419 3' -53.8 NC_004681.1 + 16012 0.67 0.862528
Target:  5'- uCUgGGCAUCGUc--CCGGCUG-CUGGc -3'
miRNA:   3'- -GGgUUGUAGCAacuGGCCGACaGGCC- -5'
18419 3' -53.8 NC_004681.1 + 58923 0.67 0.862528
Target:  5'- --aGAgGUUGUUGGCCu-CUGUCCGGg -3'
miRNA:   3'- gggUUgUAGCAACUGGccGACAGGCC- -5'
18419 3' -53.8 NC_004681.1 + 51092 0.67 0.854506
Target:  5'- cCCCGACGUCGac-GCCGGUguUCCa- -3'
miRNA:   3'- -GGGUUGUAGCaacUGGCCGacAGGcc -5'
18419 3' -53.8 NC_004681.1 + 13815 0.67 0.854506
Target:  5'- gCUCAACAUCGUguacggggGACUGGaCgauaaGUCCGu -3'
miRNA:   3'- -GGGUUGUAGCAa-------CUGGCC-Ga----CAGGCc -5'
18419 3' -53.8 NC_004681.1 + 19983 0.67 0.854506
Target:  5'- gCCGACAaccUCca-GGCCGGUcaGUCCGGg -3'
miRNA:   3'- gGGUUGU---AGcaaCUGGCCGa-CAGGCC- -5'
18419 3' -53.8 NC_004681.1 + 48821 0.67 0.854506
Target:  5'- aCCCAGCGcagcUCGUUGACCgcgGGCgacucgaagCCGa -3'
miRNA:   3'- -GGGUUGU----AGCAACUGG---CCGaca------GGCc -5'
18419 3' -53.8 NC_004681.1 + 47443 0.67 0.853692
Target:  5'- gUCGACuUCGUuggcggUGAUCGGUgggaguuucagguUGUCCGGg -3'
miRNA:   3'- gGGUUGuAGCA------ACUGGCCG-------------ACAGGCC- -5'
18419 3' -53.8 NC_004681.1 + 1334 0.67 0.846266
Target:  5'- cCCCAuCggUGggGAUCGGCUcGUCgCGGu -3'
miRNA:   3'- -GGGUuGuaGCaaCUGGCCGA-CAG-GCC- -5'
18419 3' -53.8 NC_004681.1 + 11054 0.68 0.820311
Target:  5'- gCCCGACuucagCGUguggGugCGGgaGUgCGGg -3'
miRNA:   3'- -GGGUUGua---GCAa---CugGCCgaCAgGCC- -5'
18419 3' -53.8 NC_004681.1 + 19685 0.68 0.811275
Target:  5'- gCCCAGagcUCGUUGACC-GCggGUgCGGg -3'
miRNA:   3'- -GGGUUgu-AGCAACUGGcCGa-CAgGCC- -5'
18419 3' -53.8 NC_004681.1 + 58560 0.68 0.802064
Target:  5'- gCCCAGCuguUCGUUGAUCcacuugacgugGGCg--CCGGu -3'
miRNA:   3'- -GGGUUGu--AGCAACUGG-----------CCGacaGGCC- -5'
18419 3' -53.8 NC_004681.1 + 18104 0.69 0.773466
Target:  5'- cCCCGGCAUCGgcGcccCCGGCcaggcaCCGGg -3'
miRNA:   3'- -GGGUUGUAGCaaCu--GGCCGaca---GGCC- -5'
18419 3' -53.8 NC_004681.1 + 31995 0.69 0.733465
Target:  5'- gCCAGCAUCGgcucgcUGAUCGGCg--CCGcGg -3'
miRNA:   3'- gGGUUGUAGCa-----ACUGGCCGacaGGC-C- -5'
18419 3' -53.8 NC_004681.1 + 24558 0.7 0.71285
Target:  5'- uCCCGGCGccUCGUUG-CCGGacagCCGGu -3'
miRNA:   3'- -GGGUUGU--AGCAACuGGCCgacaGGCC- -5'
18419 3' -53.8 NC_004681.1 + 24441 1.12 0.001777
Target:  5'- gCCCAACAUCGUUGACCGGCUGUCCGGc -3'
miRNA:   3'- -GGGUUGUAGCAACUGGCCGACAGGCC- -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.