miRNA display CGI


Results 1 - 20 of 89 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
28152 3' -64.5 NC_005887.1 + 427 0.68 0.17192
Target:  5'- cCGCCCGCuGUUGCUgcgcucgaacccucuGGCgCGuGUGGUGCGg -3'
miRNA:   3'- -GCGGGCG-UAGCGG---------------CCG-GC-CGUCACGC- -5'
28152 3' -64.5 NC_005887.1 + 538 0.66 0.249217
Target:  5'- uCGgCCGCcgcgCGCCGcGCCGGauaCAGcGCGa -3'
miRNA:   3'- -GCgGGCGua--GCGGC-CGGCC---GUCaCGC- -5'
28152 3' -64.5 NC_005887.1 + 642 0.68 0.183915
Target:  5'- gGUUCuCAUCGCCcaucuGGCCGGCGGUcuucGCGc -3'
miRNA:   3'- gCGGGcGUAGCGG-----CCGGCCGUCA----CGC- -5'
28152 3' -64.5 NC_005887.1 + 878 0.69 0.13782
Target:  5'- gGCCCGCGcCGCCGGaCGaGuCAG-GCGg -3'
miRNA:   3'- gCGGGCGUaGCGGCCgGC-C-GUCaCGC- -5'
28152 3' -64.5 NC_005887.1 + 983 0.67 0.188722
Target:  5'- uCGCCgacacgCGCaAUUGCCGGCCG-CcGUGCGc -3'
miRNA:   3'- -GCGG------GCG-UAGCGGCCGGCcGuCACGC- -5'
28152 3' -64.5 NC_005887.1 + 1062 0.71 0.10537
Target:  5'- gCGCgCGCA-CGgCGGCCGGCAauuUGCGc -3'
miRNA:   3'- -GCGgGCGUaGCgGCCGGCCGUc--ACGC- -5'
28152 3' -64.5 NC_005887.1 + 1488 0.69 0.13782
Target:  5'- gGCgUGCGgcgcUCGCgCGGCgCGGCcGUGCGg -3'
miRNA:   3'- gCGgGCGU----AGCG-GCCG-GCCGuCACGC- -5'
28152 3' -64.5 NC_005887.1 + 2059 0.77 0.037834
Target:  5'- gCGCUCGUAguaGCCGGCCGGCAGguUGuCGa -3'
miRNA:   3'- -GCGGGCGUag-CGGCCGGCCGUC--AC-GC- -5'
28152 3' -64.5 NC_005887.1 + 2180 0.67 0.214443
Target:  5'- gGCCUGa--CGCCGGCCG-CGGUGa- -3'
miRNA:   3'- gCGGGCguaGCGGCCGGCcGUCACgc -5'
28152 3' -64.5 NC_005887.1 + 2328 0.66 0.255446
Target:  5'- uCGCUgGCAUCuaUGGCgaucCGGCGG-GCGa -3'
miRNA:   3'- -GCGGgCGUAGcgGCCG----GCCGUCaCGC- -5'
28152 3' -64.5 NC_005887.1 + 2779 0.66 0.249217
Target:  5'- aGUCCGuCGUCGCgCGGCuCGGCcgcuUGCc -3'
miRNA:   3'- gCGGGC-GUAGCG-GCCG-GCCGuc--ACGc -5'
28152 3' -64.5 NC_005887.1 + 3033 0.66 0.231279
Target:  5'- aCGgaCGUggaGUCGCCGGCgaggauggucgCGGCGGUGCc -3'
miRNA:   3'- -GCggGCG---UAGCGGCCG-----------GCCGUCACGc -5'
28152 3' -64.5 NC_005887.1 + 3077 0.76 0.042331
Target:  5'- uGCCCGCggCGCUGGCC-GCAG-GCGc -3'
miRNA:   3'- gCGGGCGuaGCGGCCGGcCGUCaCGC- -5'
28152 3' -64.5 NC_005887.1 + 3267 0.66 0.230701
Target:  5'- gCGCUCGCGgcccuucUCGCUguccgGGCgCGGCAGcUGCc -3'
miRNA:   3'- -GCGGGCGU-------AGCGG-----CCG-GCCGUC-ACGc -5'
28152 3' -64.5 NC_005887.1 + 3390 0.67 0.209068
Target:  5'- gCGCaCGCuguUCGCCGcgcgcuaccGCUGGCAGgGCGg -3'
miRNA:   3'- -GCGgGCGu--AGCGGC---------CGGCCGUCaCGC- -5'
28152 3' -64.5 NC_005887.1 + 4288 0.66 0.255446
Target:  5'- uCGCgCGCGaggucgacauccUCGCCgaGGCCGGcCAGcUGCc -3'
miRNA:   3'- -GCGgGCGU------------AGCGG--CCGGCC-GUC-ACGc -5'
28152 3' -64.5 NC_005887.1 + 4850 0.66 0.225547
Target:  5'- aGCaCgGCcUCGCCGGCUGGCGucaGCu -3'
miRNA:   3'- gCG-GgCGuAGCGGCCGGCCGUca-CGc -5'
28152 3' -64.5 NC_005887.1 + 4883 0.72 0.086844
Target:  5'- cCGCUCGCgacgaugGUCGCCgagGGCCGGCGcgagguguucGUGCGc -3'
miRNA:   3'- -GCGGGCG-------UAGCGG---CCGGCCGU----------CACGC- -5'
28152 3' -64.5 NC_005887.1 + 5529 0.66 0.225547
Target:  5'- gGCCUGCGUCGUggUGGaugCGGCAGgagugccaGCGg -3'
miRNA:   3'- gCGGGCGUAGCG--GCCg--GCCGUCa-------CGC- -5'
28152 3' -64.5 NC_005887.1 + 5581 0.66 0.243113
Target:  5'- uGCCUGCugcgGCCGGUgcugCGGCcGGUGCu -3'
miRNA:   3'- gCGGGCGuag-CGGCCG----GCCG-UCACGc -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.