miRNA display CGI


Results 1 - 20 of 43 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
17077 3' -59.7 NC_004333.2 + 37669 0.73 0.160365
Target:  5'- cGCGCGCccgacccgcucgUCgGCCGGCCCGgcgcgUGGCGGc -3'
miRNA:   3'- cCGUGCG------------AG-UGGCCGGGCa----ACUGCCa -5'
17077 3' -59.7 NC_004333.2 + 38388 0.67 0.429335
Target:  5'- gGGUGCGCcggcgugaCGCCGGCCaCGgucaaGACGGc -3'
miRNA:   3'- -CCGUGCGa-------GUGGCCGG-GCaa---CUGCCa -5'
17077 3' -59.7 NC_004333.2 + 20326 0.66 0.477419
Target:  5'- -cCAgGCUUGCCGGCC-GUgccGACGGg -3'
miRNA:   3'- ccGUgCGAGUGGCCGGgCAa--CUGCCa -5'
17077 3' -59.7 NC_004333.2 + 42970 0.66 0.477419
Target:  5'- cGCACcCUCGCCGGCggaCGagcgGGCGGc -3'
miRNA:   3'- cCGUGcGAGUGGCCGg--GCaa--CUGCCa -5'
17077 3' -59.7 NC_004333.2 + 44382 0.69 0.326568
Target:  5'- uGCGCuGCUCGgCGGCgCGUgcGCGGUa -3'
miRNA:   3'- cCGUG-CGAGUgGCCGgGCAacUGCCA- -5'
17077 3' -59.7 NC_004333.2 + 9028 0.69 0.326568
Target:  5'- cGGCGCGCUCGCUG-CCU-UUGGCGa- -3'
miRNA:   3'- -CCGUGCGAGUGGCcGGGcAACUGCca -5'
17077 3' -59.7 NC_004333.2 + 29806 0.68 0.350468
Target:  5'- --gACGgUCACCGGgCCGUUGAUGc- -3'
miRNA:   3'- ccgUGCgAGUGGCCgGGCAACUGCca -5'
17077 3' -59.7 NC_004333.2 + 11833 0.68 0.358706
Target:  5'- cGGCGCGCUCcagcuugcGCCGGUacaucgcuuCCGUcUGcCGGUc -3'
miRNA:   3'- -CCGUGCGAG--------UGGCCG---------GGCA-ACuGCCA- -5'
17077 3' -59.7 NC_004333.2 + 1869 0.67 0.384223
Target:  5'- cGGUucugACGCgC-CUGGCCCGgauUGGCGGg -3'
miRNA:   3'- -CCG----UGCGaGuGGCCGGGCa--ACUGCCa -5'
17077 3' -59.7 NC_004333.2 + 43719 0.67 0.420063
Target:  5'- uGGCaccugACGCgUCGCaacaauGGCCCGcgUUGGCGGg -3'
miRNA:   3'- -CCG-----UGCG-AGUGg-----CCGGGC--AACUGCCa -5'
17077 3' -59.7 NC_004333.2 + 27852 0.67 0.392109
Target:  5'- aGCACGUcgcugagcuUCACCGGCCCugcGUUcgaguacGGCGGc -3'
miRNA:   3'- cCGUGCG---------AGUGGCCGGG---CAA-------CUGCCa -5'
17077 3' -59.7 NC_004333.2 + 9605 0.68 0.373019
Target:  5'- cGGCGCGg-CAUCGGCCgGUUGcgcaccggcugccgGCGGc -3'
miRNA:   3'- -CCGUGCgaGUGGCCGGgCAAC--------------UGCCa -5'
17077 3' -59.7 NC_004333.2 + 45006 0.72 0.183081
Target:  5'- cGGCGCGCUguCCGGCCgcucgaccgcgCGUggcgcUGGCGGc -3'
miRNA:   3'- -CCGUGCGAguGGCCGG-----------GCA-----ACUGCCa -5'
17077 3' -59.7 NC_004333.2 + 48111 0.67 0.392109
Target:  5'- gGGCGCGCgcaccgCGCCGGCauggugaCCGUcGaAUGGUu -3'
miRNA:   3'- -CCGUGCGa-----GUGGCCG-------GGCAaC-UGCCA- -5'
17077 3' -59.7 NC_004333.2 + 8649 0.7 0.262235
Target:  5'- cGGCGCGg-CGcCCGGCuuGcucgUGACGGUg -3'
miRNA:   3'- -CCGUGCgaGU-GGCCGggCa---ACUGCCA- -5'
17077 3' -59.7 NC_004333.2 + 23659 0.68 0.367078
Target:  5'- aGGCggaACGC-CGCCGGCCUcc-GGCGGc -3'
miRNA:   3'- -CCG---UGCGaGUGGCCGGGcaaCUGCCa -5'
17077 3' -59.7 NC_004333.2 + 3216 0.67 0.410914
Target:  5'- cGGCGCGC-CGCCcGcCCCGaUGACGc- -3'
miRNA:   3'- -CCGUGCGaGUGGcC-GGGCaACUGCca -5'
17077 3' -59.7 NC_004333.2 + 38615 0.66 0.438726
Target:  5'- gGGCGCGC-CGCUGcccgugguGCCCGUucUGAuCGGc -3'
miRNA:   3'- -CCGUGCGaGUGGC--------CGGGCA--ACU-GCCa -5'
17077 3' -59.7 NC_004333.2 + 25719 0.69 0.303899
Target:  5'- uGGCuuGCUCGCCGGCCagcugcagGcCGGUc -3'
miRNA:   3'- -CCGugCGAGUGGCCGGgcaa----CuGCCA- -5'
17077 3' -59.7 NC_004333.2 + 47429 0.68 0.342365
Target:  5'- cGC-CGCUCGCCGGCgccaauCCGUUcGACGc- -3'
miRNA:   3'- cCGuGCGAGUGGCCG------GGCAA-CUGCca -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.