miRNA display CGI


Results 1 - 20 of 45 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
16263 3' -57.5 NC_004084.1 + 374 0.75 0.188167
Target:  5'- gUGCCgcgagccCGGGGACGUCgCCGCCGAu- -3'
miRNA:   3'- -ACGGaa-----GCUCUUGCAGgGGCGGCUcu -5'
16263 3' -57.5 NC_004084.1 + 541 0.67 0.554586
Target:  5'- cGCCgguUCGAGucgaucuGCGacaaggcggggaucuUCCCgGCCGAGGa -3'
miRNA:   3'- aCGGa--AGCUCu------UGC---------------AGGGgCGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 2079 0.67 0.544091
Target:  5'- aGCC-UCGAGAACGgcaUcgcucgccugcgaauCCUCGUCGAGAa -3'
miRNA:   3'- aCGGaAGCUCUUGC---A---------------GGGGCGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 5700 0.71 0.351292
Target:  5'- cGCUggguugagUUCGAGGACGUCgCUCggGCCGAGGu -3'
miRNA:   3'- aCGG--------AAGCUCUUGCAG-GGG--CGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 5728 0.66 0.60565
Target:  5'- cUGCCggaguauagugCGGGAAuuacgaugacggcacUGcCCCCGCCGGGGc -3'
miRNA:   3'- -ACGGaa---------GCUCUU---------------GCaGGGGCGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 8542 0.66 0.614234
Target:  5'- cGaCC-UCGAGAucgACGUCCUCaCCGAGu -3'
miRNA:   3'- aC-GGaAGCUCU---UGCAGGGGcGGCUCu -5'
16263 3' -57.5 NC_004084.1 + 8632 0.78 0.129315
Target:  5'- cGCgaUCGAGAACaccgaggcuguaGUCCUCGCCGAGGg -3'
miRNA:   3'- aCGgaAGCUCUUG------------CAGGGGCGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 9619 0.66 0.635725
Target:  5'- cGUCUUCGA--GCGaUCaaCGCCGAGGg -3'
miRNA:   3'- aCGGAAGCUcuUGC-AGggGCGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 9734 0.66 0.614234
Target:  5'- cGgCUUCGAGGAUcUCCCaCGUCGcGAc -3'
miRNA:   3'- aCgGAAGCUCUUGcAGGG-GCGGCuCU- -5'
16263 3' -57.5 NC_004084.1 + 11109 0.66 0.635725
Target:  5'- cGCCgUUCGcggcucgaAGGAUGUCCCagaGCCGcuGGAc -3'
miRNA:   3'- aCGG-AAGC--------UCUUGCAGGGg--CGGC--UCU- -5'
16263 3' -57.5 NC_004084.1 + 11231 0.69 0.424871
Target:  5'- gGCC-UCGAGAAgcCGUCCCggucagcaucccaguCGCCGuAGAg -3'
miRNA:   3'- aCGGaAGCUCUU--GCAGGG---------------GCGGC-UCU- -5'
16263 3' -57.5 NC_004084.1 + 14656 0.75 0.182796
Target:  5'- cGCCcagUCGAugcccgcGAGCGUCCCgGCCGGGu -3'
miRNA:   3'- aCGGa--AGCU-------CUUGCAGGGgCGGCUCu -5'
16263 3' -57.5 NC_004084.1 + 14703 0.66 0.592802
Target:  5'- cGCCaUCGAuGGCGUCCUggagcuCGuuGAGAu -3'
miRNA:   3'- aCGGaAGCUcUUGCAGGG------GCggCUCU- -5'
16263 3' -57.5 NC_004084.1 + 15532 0.71 0.351292
Target:  5'- aGCUUUUGAGAGCuUCgCCUGCCG-GAg -3'
miRNA:   3'- aCGGAAGCUCUUGcAG-GGGCGGCuCU- -5'
16263 3' -57.5 NC_004084.1 + 17818 0.7 0.367969
Target:  5'- aGCUUcacCGGGAAC-UCCUCGCCGAGu -3'
miRNA:   3'- aCGGAa--GCUCUUGcAGGGGCGGCUCu -5'
16263 3' -57.5 NC_004084.1 + 18848 0.68 0.488708
Target:  5'- gGCUUUCGucGACgGUCCCgGUCGAGu -3'
miRNA:   3'- aCGGAAGCucUUG-CAGGGgCGGCUCu -5'
16263 3' -57.5 NC_004084.1 + 19185 0.67 0.539911
Target:  5'- uUGCCgaugUCGuAGAcgACGUCUCCGacaGAGAu -3'
miRNA:   3'- -ACGGa---AGC-UCU--UGCAGGGGCgg-CUCU- -5'
16263 3' -57.5 NC_004084.1 + 20822 0.67 0.560912
Target:  5'- gGUCUU-GAGAGCG-CUCC-CCGAGAg -3'
miRNA:   3'- aCGGAAgCUCUUGCaGGGGcGGCUCU- -5'
16263 3' -57.5 NC_004084.1 + 20996 0.68 0.50283
Target:  5'- cGCCgcuaUCGAGAuccaaGCGUCCaucaucggccagcguCUGCCGAGu -3'
miRNA:   3'- aCGGa---AGCUCU-----UGCAGG---------------GGCGGCUCu -5'
16263 3' -57.5 NC_004084.1 + 21134 0.73 0.269347
Target:  5'- gGCCUcccaGAGGACGUCCUggauUGUCGAGAg -3'
miRNA:   3'- aCGGAag--CUCUUGCAGGG----GCGGCUCU- -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.