miRNA display CGI


Results 1 - 17 of 17 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
12557 3' -55.7 NC_003345.1 + 69590 0.66 0.790407
Target:  5'- aCCcGUCUAucucgcuccggGCGGCGGCGuGaCGcAGACUg -3'
miRNA:   3'- -GGuCAGGU-----------UGCCGCUGCuC-GC-UCUGA- -5'
12557 3' -55.7 NC_003345.1 + 20390 0.66 0.790407
Target:  5'- uUCGG--CAACGGCGACGAGguGGACa -3'
miRNA:   3'- -GGUCagGUUGCCGCUGCUCgcUCUGa -5'
12557 3' -55.7 NC_003345.1 + 32905 0.66 0.780897
Target:  5'- uCCAGcUCCAucugaGCGGCGuuauCGAGUGAcccGCUg -3'
miRNA:   3'- -GGUC-AGGU-----UGCCGCu---GCUCGCUc--UGA- -5'
12557 3' -55.7 NC_003345.1 + 24618 0.67 0.741527
Target:  5'- aCGGaacgCCAGCGGUGGCGAauaucauaGCGAG-Cg -3'
miRNA:   3'- gGUCa---GGUUGCCGCUGCU--------CGCUCuGa -5'
12557 3' -55.7 NC_003345.1 + 21737 0.67 0.731403
Target:  5'- ---cUCCGGCGGUGACGAcgaGGGGCUu -3'
miRNA:   3'- ggucAGGUUGCCGCUGCUcg-CUCUGA- -5'
12557 3' -55.7 NC_003345.1 + 39198 0.68 0.721187
Target:  5'- -----aCAACGGCGACGGGUGGuacacGACUa -3'
miRNA:   3'- ggucagGUUGCCGCUGCUCGCU-----CUGA- -5'
12557 3' -55.7 NC_003345.1 + 42363 0.68 0.700518
Target:  5'- gCCAGuUCCAAgacguagcgaaGGgGACGGGCGAGGu- -3'
miRNA:   3'- -GGUC-AGGUUg----------CCgCUGCUCGCUCUga -5'
12557 3' -55.7 NC_003345.1 + 68405 0.68 0.690087
Target:  5'- -aAG-UgGACGGCGGCGAGCGGGu-- -3'
miRNA:   3'- ggUCaGgUUGCCGCUGCUCGCUCuga -5'
12557 3' -55.7 NC_003345.1 + 55712 0.68 0.690087
Target:  5'- aCUcGUCCGGCGGUgGugGGGCGGGu-- -3'
miRNA:   3'- -GGuCAGGUUGCCG-CugCUCGCUCuga -5'
12557 3' -55.7 NC_003345.1 + 21173 0.68 0.679604
Target:  5'- gCGGUCgccCGGCGACGAGUcGGAUg -3'
miRNA:   3'- gGUCAGguuGCCGCUGCUCGcUCUGa -5'
12557 3' -55.7 NC_003345.1 + 50798 0.68 0.669078
Target:  5'- uCUGGuUCUAACGGCGGCGguggaaacGGCGGGgACg -3'
miRNA:   3'- -GGUC-AGGUUGCCGCUGC--------UCGCUC-UGa -5'
12557 3' -55.7 NC_003345.1 + 66442 0.68 0.669078
Target:  5'- aCCGGcgugCUuACGGCG-CGAuGCGGGACa -3'
miRNA:   3'- -GGUCa---GGuUGCCGCuGCU-CGCUCUGa -5'
12557 3' -55.7 NC_003345.1 + 20989 0.69 0.647941
Target:  5'- gCGGUagcaacaacaaCAGCGGCG-CGAGCGGcGACUu -3'
miRNA:   3'- gGUCAg----------GUUGCCGCuGCUCGCU-CUGA- -5'
12557 3' -55.7 NC_003345.1 + 2608 0.69 0.637348
Target:  5'- gCGGUagCGACGGCGACG-GCGGuaguGACa -3'
miRNA:   3'- gGUCAg-GUUGCCGCUGCuCGCU----CUGa -5'
12557 3' -55.7 NC_003345.1 + 14030 0.69 0.62569
Target:  5'- -uGGUUC-ACGGUGACGAGUgaugccgGAGACUc -3'
miRNA:   3'- ggUCAGGuUGCCGCUGCUCG-------CUCUGA- -5'
12557 3' -55.7 NC_003345.1 + 42329 0.74 0.364116
Target:  5'- aUCAGcCCGuugGCGGCGACGGGguaggcauCGAGGCUg -3'
miRNA:   3'- -GGUCaGGU---UGCCGCUGCUC--------GCUCUGA- -5'
12557 3' -55.7 NC_003345.1 + 40192 1.1 0.001423
Target:  5'- gCCAGUCCAACGGCGACGAGCGAGACUa -3'
miRNA:   3'- -GGUCAGGUUGCCGCUGCUCGCUCUGA- -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.