miRNA display CGI


Results 1 - 20 of 24 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
28485 5' -65.9 NC_005946.1 + 38199 0.66 0.41646
Target:  5'- gGGCUGAGGGacguCGGGcCCCCUCucGAc-- -3'
miRNA:   3'- -CCGGCUCCC----GCCC-GGGGAGucCUccg -5'
28485 5' -65.9 NC_005946.1 + 93097 0.66 0.41646
Target:  5'- gGGCCGAGGuGaC-GGCUgg-CAGGAGGUa -3'
miRNA:   3'- -CCGGCUCC-C-GcCCGGggaGUCCUCCG- -5'
28485 5' -65.9 NC_005946.1 + 103584 0.66 0.403223
Target:  5'- cGGCCGGGGaGCucgugagcaGGGUgUCCUCGgacgcggaccccgccGGGGGCu -3'
miRNA:   3'- -CCGGCUCC-CG---------CCCG-GGGAGU---------------CCUCCG- -5'
28485 5' -65.9 NC_005946.1 + 86233 0.66 0.399956
Target:  5'- aGGCCGAGa--GGGCCUCgggUCAGuuGGGCa -3'
miRNA:   3'- -CCGGCUCccgCCCGGGG---AGUCc-UCCG- -5'
28485 5' -65.9 NC_005946.1 + 29515 0.66 0.391862
Target:  5'- aGGCCcccgGAGcGGUGGGUCCaaccgguccCAGcGGGGCg -3'
miRNA:   3'- -CCGG----CUC-CCGCCCGGGga-------GUC-CUCCG- -5'
28485 5' -65.9 NC_005946.1 + 29337 0.66 0.391862
Target:  5'- gGGcCCGuGGGaGcGGCUgggCCUCAGG-GGCa -3'
miRNA:   3'- -CC-GGCuCCCgC-CCGG---GGAGUCCuCCG- -5'
28485 5' -65.9 NC_005946.1 + 77622 0.66 0.383875
Target:  5'- cGGCaGAGGGCuuucuGCCCgUCAGGgucuGGGUg -3'
miRNA:   3'- -CCGgCUCCCGcc---CGGGgAGUCC----UCCG- -5'
28485 5' -65.9 NC_005946.1 + 91530 0.66 0.375998
Target:  5'- uGGCCaGGGGaGCGGcGCUCCUCAGa---- -3'
miRNA:   3'- -CCGG-CUCC-CGCC-CGGGGAGUCcuccg -5'
28485 5' -65.9 NC_005946.1 + 79346 0.66 0.375998
Target:  5'- uGGCCuGAGGGCaGGUCCCaccacCAGGuucuuuGCa -3'
miRNA:   3'- -CCGG-CUCCCGcCCGGGGa----GUCCuc----CG- -5'
28485 5' -65.9 NC_005946.1 + 23464 0.66 0.375998
Target:  5'- cGGCCGAGaGGauGGaCgUgucagCGGGAGGCa -3'
miRNA:   3'- -CCGGCUC-CCgcCCgGgGa----GUCCUCCG- -5'
28485 5' -65.9 NC_005946.1 + 56475 0.67 0.338275
Target:  5'- gGGCCcugGAGGGgaCGGGgUCCUCguagacGGGAGGa -3'
miRNA:   3'- -CCGG---CUCCC--GCCCgGGGAG------UCCUCCg -5'
28485 5' -65.9 NC_005946.1 + 75911 0.67 0.333937
Target:  5'- uGGCCGucAGGGUGGGCgucaucuccuggucgCCCUCcauGGcaaucucugcaaAGGCu -3'
miRNA:   3'- -CCGGC--UCCCGCCCG---------------GGGAGu--CC------------UCCG- -5'
28485 5' -65.9 NC_005946.1 + 34055 0.68 0.31013
Target:  5'- cGGCCaaGAGGcccGCGGGCCagaggaCGGGAGGa -3'
miRNA:   3'- -CCGG--CUCC---CGCCCGGgga---GUCCUCCg -5'
28485 5' -65.9 NC_005946.1 + 17570 0.68 0.303379
Target:  5'- cGGCCGGGcaGGCacuGGaCCuCCUCAGGcgcgagGGGCa -3'
miRNA:   3'- -CCGGCUC--CCGc--CC-GG-GGAGUCC------UCCG- -5'
28485 5' -65.9 NC_005946.1 + 10740 0.68 0.303379
Target:  5'- uGCUGGGGGCGGaGgUCCUCGcG-GGCa -3'
miRNA:   3'- cCGGCUCCCGCC-CgGGGAGUcCuCCG- -5'
28485 5' -65.9 NC_005946.1 + 48014 0.68 0.303379
Target:  5'- uGGCCGGGGGgGaGaGCgCCCacaaggUCaacgGGGAGGCc -3'
miRNA:   3'- -CCGGCUCCCgC-C-CG-GGG------AG----UCCUCCG- -5'
28485 5' -65.9 NC_005946.1 + 56531 0.69 0.259278
Target:  5'- gGGUCGGGGacgaggacCGGGUCgUgagUCAGGAGGCa -3'
miRNA:   3'- -CCGGCUCCc-------GCCCGGgG---AGUCCUCCG- -5'
28485 5' -65.9 NC_005946.1 + 58499 0.7 0.220552
Target:  5'- cGGCCacucuGGGGCGGGCuugaaCCC-CGGGAuGGUc -3'
miRNA:   3'- -CCGGc----UCCCGCCCG-----GGGaGUCCU-CCG- -5'
28485 5' -65.9 NC_005946.1 + 92672 0.7 0.213927
Target:  5'- aGGCCauagccagguccugGAGGGCGGGUUCCcacgaCAGGcucaAGGCc -3'
miRNA:   3'- -CCGG--------------CUCCCGCCCGGGGa----GUCC----UCCG- -5'
28485 5' -65.9 NC_005946.1 + 31098 0.7 0.205521
Target:  5'- aGCCuguucGGGGUucaccaGGCCCCUCuuGGAGGCg -3'
miRNA:   3'- cCGGc----UCCCGc-----CCGGGGAGu-CCUCCG- -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.