miRNA display CGI


Results 1 - 20 of 133 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
12960 3' -63.1 NC_003387.1 + 423 0.68 0.246002
Target:  5'- -uGCUGGCGGUGGCuuauGGCGGUuaagucugucGCCgCCGc -3'
miRNA:   3'- guUGGCCGCCGCUG----UCGCCG----------UGG-GGC- -5'
12960 3' -63.1 NC_003387.1 + 465 0.67 0.264713
Target:  5'- gCGGCCGaCGGCGACcggcGCGaGCugCUCGu -3'
miRNA:   3'- -GUUGGCcGCCGCUGu---CGC-CGugGGGC- -5'
12960 3' -63.1 NC_003387.1 + 508 0.69 0.211875
Target:  5'- --cCCGcGUGGCGACcGCGGUugaagAUCCCGa -3'
miRNA:   3'- guuGGC-CGCCGCUGuCGCCG-----UGGGGC- -5'
12960 3' -63.1 NC_003387.1 + 1293 0.68 0.234146
Target:  5'- uCGACCGGCGcaguuCGA-GGCGGCGCCgCa -3'
miRNA:   3'- -GUUGGCCGCc----GCUgUCGCCGUGGgGc -5'
12960 3' -63.1 NC_003387.1 + 1514 0.66 0.327745
Target:  5'- cCAGCCGGUcgugaagucGG-GGCGGUGGCACgaCCUGu -3'
miRNA:   3'- -GUUGGCCG---------CCgCUGUCGCCGUG--GGGC- -5'
12960 3' -63.1 NC_003387.1 + 1763 0.77 0.055875
Target:  5'- --cCCGGCGGCGGCGcUGGCGCCCg- -3'
miRNA:   3'- guuGGCCGCCGCUGUcGCCGUGGGgc -5'
12960 3' -63.1 NC_003387.1 + 2052 0.68 0.252114
Target:  5'- gAGCUGGCcGCGGUGGCGGCGCCa-- -3'
miRNA:   3'- gUUGGCCGcCGCUGUCGCCGUGGggc -5'
12960 3' -63.1 NC_003387.1 + 2479 0.66 0.335397
Target:  5'- --cCCGGCGcUGACGuaCGGCGCCUCGu -3'
miRNA:   3'- guuGGCCGCcGCUGUc-GCCGUGGGGC- -5'
12960 3' -63.1 NC_003387.1 + 3566 0.71 0.155742
Target:  5'- uCAACgagGGCGGCGugaaugguaACGGCGGCGCCUg- -3'
miRNA:   3'- -GUUGg--CCGCCGC---------UGUCGCCGUGGGgc -5'
12960 3' -63.1 NC_003387.1 + 3829 0.66 0.320223
Target:  5'- aCGAUCgucagGGCGGCGcgguaGGCGGCGCCgaCGa -3'
miRNA:   3'- -GUUGG-----CCGCCGCug---UCGCCGUGGg-GC- -5'
12960 3' -63.1 NC_003387.1 + 3913 0.7 0.181901
Target:  5'- aCGACCGGCGG-GACGaUGGCcGCCgCCGc -3'
miRNA:   3'- -GUUGGCCGCCgCUGUcGCCG-UGG-GGC- -5'
12960 3' -63.1 NC_003387.1 + 4491 0.67 0.30485
Target:  5'- cCGACCGG-GcGCGACAcgaucguGCGGguCACCUCGg -3'
miRNA:   3'- -GUUGGCCgC-CGCUGU-------CGCC--GUGGGGC- -5'
12960 3' -63.1 NC_003387.1 + 4615 0.68 0.258351
Target:  5'- uGAUCGGCgagccaccgcgGGCG-CAGCGGCAgcgccaCCCGu -3'
miRNA:   3'- gUUGGCCG-----------CCGCuGUCGCCGUg-----GGGC- -5'
12960 3' -63.1 NC_003387.1 + 5015 0.68 0.258351
Target:  5'- cCAGCaCGGCaGGCucacGAgGGCGGCGCUgCGc -3'
miRNA:   3'- -GUUG-GCCG-CCG----CUgUCGCCGUGGgGC- -5'
12960 3' -63.1 NC_003387.1 + 5689 0.66 0.335397
Target:  5'- gCAGCaaGGUGGCGGCGGUcaagGGCguGCCCgCGu -3'
miRNA:   3'- -GUUGg-CCGCCGCUGUCG----CCG--UGGG-GC- -5'
12960 3' -63.1 NC_003387.1 + 5821 0.73 0.116485
Target:  5'- gCAACCccgcgcaaGGCGGCGGCGGCcucaaguccGGUGCCaCCGg -3'
miRNA:   3'- -GUUGG--------CCGCCGCUGUCG---------CCGUGG-GGC- -5'
12960 3' -63.1 NC_003387.1 + 6555 0.66 0.346327
Target:  5'- gAGCCGGgacaCGGCGcaccaACAcauagaacgacgaccGCGGCACCUCa -3'
miRNA:   3'- gUUGGCC----GCCGC-----UGU---------------CGCCGUGGGGc -5'
12960 3' -63.1 NC_003387.1 + 6942 0.67 0.264713
Target:  5'- -uAUCGGgGuGCGugAG-GGCACCCUGc -3'
miRNA:   3'- guUGGCCgC-CGCugUCgCCGUGGGGC- -5'
12960 3' -63.1 NC_003387.1 + 6956 0.68 0.234146
Target:  5'- gCGGCgGGCaGGCGccACAGCG-CGCCCuCGg -3'
miRNA:   3'- -GUUGgCCG-CCGC--UGUCGCcGUGGG-GC- -5'
12960 3' -63.1 NC_003387.1 + 7742 0.7 0.177286
Target:  5'- -cACCGccuCGGCGGCAGCGGCgAUCgCGg -3'
miRNA:   3'- guUGGCc--GCCGCUGUCGCCG-UGGgGC- -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.