miRNA display CGI


Results 1 - 20 of 37 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
19293 3' -58.7 NC_004685.1 + 53215 0.66 0.643548
Target:  5'- -uUCGAgUaGGUCAGCgaGCCGGucGCGCc -3'
miRNA:   3'- gcAGCUgA-CCAGUCGacUGGCC--CGCG- -5'
19293 3' -58.7 NC_004685.1 + 37295 0.66 0.643548
Target:  5'- gGUCGGC-GGccgagCAGUUGGagcagUGGGCGCa -3'
miRNA:   3'- gCAGCUGaCCa----GUCGACUg----GCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 3936 0.66 0.643548
Target:  5'- aGgCGGcCUGGacccUCAGCggcucaGGCuCGGGCGCg -3'
miRNA:   3'- gCaGCU-GACC----AGUCGa-----CUG-GCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 8260 0.66 0.643548
Target:  5'- gGUCuACUGGgacaaaGGgUGGCgGGGCGUu -3'
miRNA:   3'- gCAGcUGACCag----UCgACUGgCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 16509 0.66 0.633057
Target:  5'- gCGUCGugcaguacacccGCUGGg-GGCgcaaccGGCUGGGCGUg -3'
miRNA:   3'- -GCAGC------------UGACCagUCGa-----CUGGCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 9146 0.66 0.633057
Target:  5'- uCGUgGACUGGUUcaAGCaGAUcaugaCGGGUGUu -3'
miRNA:   3'- -GCAgCUGACCAG--UCGaCUG-----GCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 10085 0.66 0.601612
Target:  5'- cCGU-GGCUGGaaGGCgcaGCCGGuGCGCu -3'
miRNA:   3'- -GCAgCUGACCagUCGac-UGGCC-CGCG- -5'
19293 3' -58.7 NC_004685.1 + 67865 0.66 0.601612
Target:  5'- gGUCGACaUGGgaucgCGGCgcGCCGGcgucGCGCu -3'
miRNA:   3'- gCAGCUG-ACCa----GUCGacUGGCC----CGCG- -5'
19293 3' -58.7 NC_004685.1 + 56271 0.66 0.601612
Target:  5'- aGUCGuCgGGUCAGCggcGACaGGucGCGCa -3'
miRNA:   3'- gCAGCuGaCCAGUCGa--CUGgCC--CGCG- -5'
19293 3' -58.7 NC_004685.1 + 62474 0.66 0.598476
Target:  5'- uCGUCaaGCUGGUCGGgUGacaggaacgccacgGCCGGGCc- -3'
miRNA:   3'- -GCAGc-UGACCAGUCgAC--------------UGGCCCGcg -5'
19293 3' -58.7 NC_004685.1 + 21673 0.66 0.591168
Target:  5'- cCGUgGA--GGUCAcGCUcGACgaCGGGCGCg -3'
miRNA:   3'- -GCAgCUgaCCAGU-CGA-CUG--GCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 29864 0.66 0.591168
Target:  5'- uGUCGGCcGG-CAGCggaucgucagGGCUGGGCa- -3'
miRNA:   3'- gCAGCUGaCCaGUCGa---------CUGGCCCGcg -5'
19293 3' -58.7 NC_004685.1 + 46807 0.67 0.580754
Target:  5'- aCGUCaGCggccgauGUCGGCa-GCCGGGCGCc -3'
miRNA:   3'- -GCAGcUGac-----CAGUCGacUGGCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 37484 0.67 0.57038
Target:  5'- gCGUCGACUGGgagaacccgccCAGCccUGGCgaggUGuGGCGCg -3'
miRNA:   3'- -GCAGCUGACCa----------GUCG--ACUG----GC-CCGCG- -5'
19293 3' -58.7 NC_004685.1 + 37929 0.67 0.560051
Target:  5'- gCGggCGGgUGGUCggAGCUGGCCGGcaccuacacgGUGCc -3'
miRNA:   3'- -GCa-GCUgACCAG--UCGACUGGCC----------CGCG- -5'
19293 3' -58.7 NC_004685.1 + 40785 0.67 0.549775
Target:  5'- gGUCGAagucCUGGUucCGGC-GGCCGGucaGCGCc -3'
miRNA:   3'- gCAGCU----GACCA--GUCGaCUGGCC---CGCG- -5'
19293 3' -58.7 NC_004685.1 + 10848 0.67 0.539558
Target:  5'- uCGUCGGauuGUCgAGUUGAuCCGGGCGa -3'
miRNA:   3'- -GCAGCUgacCAG-UCGACU-GGCCCGCg -5'
19293 3' -58.7 NC_004685.1 + 56800 0.67 0.539558
Target:  5'- cCGcUCGACgagGGcagCAGCgGAUUGGGCGg -3'
miRNA:   3'- -GC-AGCUGa--CCa--GUCGaCUGGCCCGCg -5'
19293 3' -58.7 NC_004685.1 + 30774 0.67 0.529406
Target:  5'- cCGggUGACUccGGcuUCGGCaaGCCGGGCGCg -3'
miRNA:   3'- -GCa-GCUGA--CC--AGUCGacUGGCCCGCG- -5'
19293 3' -58.7 NC_004685.1 + 2739 0.68 0.520329
Target:  5'- aCGUCGAacaUGGcCAGCgucucgucgggcacgGuGCCGcGGCGCg -3'
miRNA:   3'- -GCAGCUg--ACCaGUCGa--------------C-UGGC-CCGCG- -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.