miRNA display CGI


Results 1 - 20 of 40 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
23277 3' -54.5 NC_005259.1 + 270 0.7 0.624608
Target:  5'- -cUAGGGCgGuGUACGCCGCCUacgcGGCc -3'
miRNA:   3'- gcAUCCUGgC-UAUGCGGCGGAac--UCG- -5'
23277 3' -54.5 NC_005259.1 + 4274 0.68 0.710486
Target:  5'- ---cGGGCgGcUGCGCUGCCacGAGCa -3'
miRNA:   3'- gcauCCUGgCuAUGCGGCGGaaCUCG- -5'
23277 3' -54.5 NC_005259.1 + 6923 0.67 0.751974
Target:  5'- uCG-AGaACCGc--CGCCGCCUUGAGg -3'
miRNA:   3'- -GCaUCcUGGCuauGCGGCGGAACUCg -5'
23277 3' -54.5 NC_005259.1 + 8291 0.66 0.828619
Target:  5'- gCGcGGGcACCcgcacgGAaACGCCGCCUUgucgGAGCu -3'
miRNA:   3'- -GCaUCC-UGG------CUaUGCGGCGGAA----CUCG- -5'
23277 3' -54.5 NC_005259.1 + 9086 0.66 0.810459
Target:  5'- -aUAGGcCCGuUGC-CCGCCgaGGGCg -3'
miRNA:   3'- gcAUCCuGGCuAUGcGGCGGaaCUCG- -5'
23277 3' -54.5 NC_005259.1 + 10671 0.72 0.477551
Target:  5'- --gAGGAUgGucUGCGCCGCCUcuuugucgccguUGAGCa -3'
miRNA:   3'- gcaUCCUGgCu-AUGCGGCGGA------------ACUCG- -5'
23277 3' -54.5 NC_005259.1 + 18656 0.66 0.819634
Target:  5'- ----uGGCgCGAUAUGCCGCCgcccGAGUa -3'
miRNA:   3'- gcaucCUG-GCUAUGCGGCGGaa--CUCG- -5'
23277 3' -54.5 NC_005259.1 + 19225 0.7 0.581506
Target:  5'- aCGUGGGAcaCCGAgucgGCgaugaucgaugGCCGCCUgccGGGCc -3'
miRNA:   3'- -GCAUCCU--GGCUa---UG-----------CGGCGGAa--CUCG- -5'
23277 3' -54.5 NC_005259.1 + 25169 0.66 0.804867
Target:  5'- cCGuUGGGuCCGAcccgUACGCCGCCgccgaucccaccgGGGUc -3'
miRNA:   3'- -GC-AUCCuGGCU----AUGCGGCGGaa-----------CUCG- -5'
23277 3' -54.5 NC_005259.1 + 26124 0.69 0.678552
Target:  5'- cCGccGGucGCCGGUccgACGCCGCCgaggccGAGCa -3'
miRNA:   3'- -GCauCC--UGGCUA---UGCGGCGGaa----CUCG- -5'
23277 3' -54.5 NC_005259.1 + 26448 0.67 0.779936
Target:  5'- gGgcGGGCCGGUGgGCCGauguggaacGAGCa -3'
miRNA:   3'- gCauCCUGGCUAUgCGGCggaa-----CUCG- -5'
23277 3' -54.5 NC_005259.1 + 27158 0.68 0.741752
Target:  5'- -uUGGGGCCaacgAUGCCGUCggcgaUGAGCa -3'
miRNA:   3'- gcAUCCUGGcua-UGCGGCGGa----ACUCG- -5'
23277 3' -54.5 NC_005259.1 + 27263 1.11 0.001275
Target:  5'- gCGUAGGACCGAUACGCCGCCUUGAGCc -3'
miRNA:   3'- -GCAUCCUGGCUAUGCGGCGGAACUCG- -5'
23277 3' -54.5 NC_005259.1 + 27843 0.66 0.798264
Target:  5'- gGUAGG-CCGcgaggucgcgcgccGUACGaCCGCCcucUUGGGUg -3'
miRNA:   3'- gCAUCCuGGC--------------UAUGC-GGCGG---AACUCG- -5'
23277 3' -54.5 NC_005259.1 + 28318 0.69 0.667808
Target:  5'- gCGUA-GAUCGGUGUGCCGuCCUUG-GCg -3'
miRNA:   3'- -GCAUcCUGGCUAUGCGGC-GGAACuCG- -5'
23277 3' -54.5 NC_005259.1 + 29068 0.66 0.808603
Target:  5'- gGUAucGGcCCGAUcuGCGCUGCCaaggccggguggUGAGCu -3'
miRNA:   3'- gCAU--CCuGGCUA--UGCGGCGGa-----------ACUCG- -5'
23277 3' -54.5 NC_005259.1 + 33117 0.66 0.837404
Target:  5'- uGUAGGGCCacGcgGCaGCCGCCgc--GCg -3'
miRNA:   3'- gCAUCCUGG--CuaUG-CGGCGGaacuCG- -5'
23277 3' -54.5 NC_005259.1 + 39994 0.72 0.497692
Target:  5'- ---cGGGCUGAU-CGCCGCC--GAGCa -3'
miRNA:   3'- gcauCCUGGCUAuGCGGCGGaaCUCG- -5'
23277 3' -54.5 NC_005259.1 + 41884 0.74 0.383607
Target:  5'- uGgcGGGCCGAUACGCaUGCgggaUGAGCg -3'
miRNA:   3'- gCauCCUGGCUAUGCG-GCGga--ACUCG- -5'
23277 3' -54.5 NC_005259.1 + 42892 0.68 0.730384
Target:  5'- gGUGGGGuuGAgcacgaGCUcagaucguuggugGCCUUGAGCa -3'
miRNA:   3'- gCAUCCUggCUaug---CGG-------------CGGAACUCG- -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.