miRNA display CGI


Results 1 - 20 of 44 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
19748 3' -51 NC_004687.1 + 28657 0.74 0.800666
Target:  5'- cCGCAUCGcCCAGAUCGA--UCGGgugaUCGCg -3'
miRNA:   3'- -GUGUAGU-GGUCUAGCUacAGCC----AGUG- -5'
19748 3' -51 NC_004687.1 + 101219 0.66 0.994985
Target:  5'- --gAUCAgCCAG-UCGAUGUuguugcucuccucggCGGUCACc -3'
miRNA:   3'- gugUAGU-GGUCuAGCUACA---------------GCCAGUG- -5'
19748 3' -51 NC_004687.1 + 21212 0.66 0.993821
Target:  5'- gCACAUCGCCgAGAUCGAgGcCGaGUaccaACg -3'
miRNA:   3'- -GUGUAGUGG-UCUAGCUaCaGC-CAg---UG- -5'
19748 3' -51 NC_004687.1 + 122361 0.66 0.992864
Target:  5'- gACAUCGCCAGAcucaaaagCGAccUGUCuccucgGGUCAa -3'
miRNA:   3'- gUGUAGUGGUCUa-------GCU--ACAG------CCAGUg -5'
19748 3' -51 NC_004687.1 + 16766 0.66 0.991793
Target:  5'- uCGCAUCGucacagcgccCCGGggCGAggacugggUGUCGGUCGg -3'
miRNA:   3'- -GUGUAGU----------GGUCuaGCU--------ACAGCCAGUg -5'
19748 3' -51 NC_004687.1 + 61216 0.66 0.990597
Target:  5'- aACucgCGCCAGugcGUCGAgacucUCGGUCACc -3'
miRNA:   3'- gUGua-GUGGUC---UAGCUac---AGCCAGUG- -5'
19748 3' -51 NC_004687.1 + 123914 0.67 0.98927
Target:  5'- gGCGUCACUgcgcagcagguAGAggcCGAUGUCcggcaggaGGUCGCg -3'
miRNA:   3'- gUGUAGUGG-----------UCUa--GCUACAG--------CCAGUG- -5'
19748 3' -51 NC_004687.1 + 35090 0.67 0.98927
Target:  5'- cCGCcgC-CUGGAUCGGccUCGGUCGCu -3'
miRNA:   3'- -GUGuaGuGGUCUAGCUacAGCCAGUG- -5'
19748 3' -51 NC_004687.1 + 75783 0.67 0.9878
Target:  5'- uGCAUCACCc---CGAUGUgGGcUCGCu -3'
miRNA:   3'- gUGUAGUGGucuaGCUACAgCC-AGUG- -5'
19748 3' -51 NC_004687.1 + 22552 0.68 0.978954
Target:  5'- gGC-UgGCCAGAugcucccuuggguugUCGAUGUCGG-CACc -3'
miRNA:   3'- gUGuAgUGGUCU---------------AGCUACAGCCaGUG- -5'
19748 3' -51 NC_004687.1 + 140681 0.72 0.868572
Target:  5'- gACGUgccCGCCGGAUCGA---CGGUCGCg -3'
miRNA:   3'- gUGUA---GUGGUCUAGCUacaGCCAGUG- -5'
19748 3' -51 NC_004687.1 + 45567 0.7 0.922182
Target:  5'- gACAUCGCCGG--UGGUGUgGGUgACg -3'
miRNA:   3'- gUGUAGUGGUCuaGCUACAgCCAgUG- -5'
19748 3' -51 NC_004687.1 + 123203 0.69 0.951853
Target:  5'- aUACAUCACC-GAgcaCGGUGUCGaGaUCACc -3'
miRNA:   3'- -GUGUAGUGGuCUa--GCUACAGC-C-AGUG- -5'
19748 3' -51 NC_004687.1 + 16091 0.69 0.955926
Target:  5'- aACGUCGCCGGGaucaUCGAggcggCGGUCGg -3'
miRNA:   3'- gUGUAGUGGUCU----AGCUaca--GCCAGUg -5'
19748 3' -51 NC_004687.1 + 28234 0.69 0.966719
Target:  5'- gGCggCGCCAGAUCGAgcUCGGcgaCACc -3'
miRNA:   3'- gUGuaGUGGUCUAGCUacAGCCa--GUG- -5'
19748 3' -51 NC_004687.1 + 83639 0.68 0.978005
Target:  5'- gGCAUCACCaacaAGGUCGAccUGUUcGUCAa -3'
miRNA:   3'- gUGUAGUGG----UCUAGCU--ACAGcCAGUg -5'
19748 3' -51 NC_004687.1 + 135292 1.09 0.008878
Target:  5'- cCACAUCACCAGAUCGAUGUCGGUCACc -3'
miRNA:   3'- -GUGUAGUGGUCUAGCUACAGCCAGUG- -5'
19748 3' -51 NC_004687.1 + 35581 0.66 0.993821
Target:  5'- gGCGUCgGCCuGGAUCGcguaGUCGGUCuCg -3'
miRNA:   3'- gUGUAG-UGG-UCUAGCua--CAGCCAGuG- -5'
19748 3' -51 NC_004687.1 + 48921 0.66 0.993821
Target:  5'- uCGCAUCuggagcACCAGAUCGcgcUCGGccUCGCg -3'
miRNA:   3'- -GUGUAG------UGGUCUAGCuacAGCC--AGUG- -5'
19748 3' -51 NC_004687.1 + 144100 0.66 0.99326
Target:  5'- gCGCAUCcggggugccuucgaACCAGAUgacgcuguagggggCGGUGgCGGUCAUg -3'
miRNA:   3'- -GUGUAG--------------UGGUCUA--------------GCUACaGCCAGUG- -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.