miRNA display CGI


Results 1 - 20 of 36 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
11428 3' -55.7 NC_003085.1 + 38735 1.08 0.000843
Target:  5'- aCAGCAACAGCGUCCGCUUGCCGUCAGc -3'
miRNA:   3'- -GUCGUUGUCGCAGGCGAACGGCAGUC- -5'
11428 3' -55.7 NC_003085.1 + 6575 0.75 0.189814
Target:  5'- -cGUGACAGCGccccaUCCGCUUGCCGUg-- -3'
miRNA:   3'- guCGUUGUCGC-----AGGCGAACGGCAguc -5'
11428 3' -55.7 NC_003085.1 + 36637 0.74 0.223142
Target:  5'- gCGGcCAACAGCGcaUCCGCccgGaCCGUCAGg -3'
miRNA:   3'- -GUC-GUUGUCGC--AGGCGaa-C-GGCAGUC- -5'
11428 3' -55.7 NC_003085.1 + 22737 0.73 0.282322
Target:  5'- aCAGCAcCGGCG-CCGC--GCCGUCAc -3'
miRNA:   3'- -GUCGUuGUCGCaGGCGaaCGGCAGUc -5'
11428 3' -55.7 NC_003085.1 + 26673 0.71 0.328294
Target:  5'- gGGCGGgAGCGgccguugCCGC-UGCCGUCGc -3'
miRNA:   3'- gUCGUUgUCGCa------GGCGaACGGCAGUc -5'
11428 3' -55.7 NC_003085.1 + 19132 0.71 0.353277
Target:  5'- -cGCGACAGCGUCCGCcaggGCCc---- -3'
miRNA:   3'- guCGUUGUCGCAGGCGaa--CGGcaguc -5'
11428 3' -55.7 NC_003085.1 + 23097 0.7 0.426217
Target:  5'- gAGCAACGGCaUCCGCUgcgUGCgGUUc- -3'
miRNA:   3'- gUCGUUGUCGcAGGCGA---ACGgCAGuc -5'
11428 3' -55.7 NC_003085.1 + 37449 0.69 0.445805
Target:  5'- cCGGCAGgugcgcCAGCGUcaggCCGCUgcUGCCG-CAGg -3'
miRNA:   3'- -GUCGUU------GUCGCA----GGCGA--ACGGCaGUC- -5'
11428 3' -55.7 NC_003085.1 + 30718 0.68 0.486426
Target:  5'- cCAGCGGCGGCuUCgGCaUGCUGcgCAGg -3'
miRNA:   3'- -GUCGUUGUCGcAGgCGaACGGCa-GUC- -5'
11428 3' -55.7 NC_003085.1 + 40314 0.68 0.486426
Target:  5'- -cGCGGCGGCGagcUCCGCcaggUGCCGcuccCAGa -3'
miRNA:   3'- guCGUUGUCGC---AGGCGa---ACGGCa---GUC- -5'
11428 3' -55.7 NC_003085.1 + 1583 0.68 0.496856
Target:  5'- gCGGC-GCGGCGUaCGCgUGCCGUguGc -3'
miRNA:   3'- -GUCGuUGUCGCAgGCGaACGGCAguC- -5'
11428 3' -55.7 NC_003085.1 + 43542 0.68 0.514812
Target:  5'- aGGCGGC-GCGUCCaGCUUGCgcgagauaggcccgCGUCAc -3'
miRNA:   3'- gUCGUUGuCGCAGG-CGAACG--------------GCAGUc -5'
11428 3' -55.7 NC_003085.1 + 49004 0.68 0.518008
Target:  5'- -uGCAACAGCGccggcuggcccUCCGC--GCCGUguGa -3'
miRNA:   3'- guCGUUGUCGC-----------AGGCGaaCGGCAguC- -5'
11428 3' -55.7 NC_003085.1 + 803 0.68 0.518008
Target:  5'- aGGCcACGGUggacGUCCGCgUGCCGccgCAGg -3'
miRNA:   3'- gUCGuUGUCG----CAGGCGaACGGCa--GUC- -5'
11428 3' -55.7 NC_003085.1 + 26724 0.68 0.528718
Target:  5'- gCGGUGACGGCG-CgGCgccggUGCUGUCAc -3'
miRNA:   3'- -GUCGUUGUCGCaGgCGa----ACGGCAGUc -5'
11428 3' -55.7 NC_003085.1 + 42137 0.68 0.53951
Target:  5'- -cGCGuccuCAGCcgccUCCGCgaugGCCGUCGGa -3'
miRNA:   3'- guCGUu---GUCGc---AGGCGaa--CGGCAGUC- -5'
11428 3' -55.7 NC_003085.1 + 15417 0.68 0.53951
Target:  5'- cCGGCAGCGGUGa--GUaUGCCGUCAc -3'
miRNA:   3'- -GUCGUUGUCGCaggCGaACGGCAGUc -5'
11428 3' -55.7 NC_003085.1 + 32449 0.67 0.550374
Target:  5'- -cGCgAGCAGCGcccaUCCGCgcuucucgucGCCGUCGGc -3'
miRNA:   3'- guCG-UUGUCGC----AGGCGaa--------CGGCAGUC- -5'
11428 3' -55.7 NC_003085.1 + 35304 0.67 0.561306
Target:  5'- uCGGCAGCAG-GU-CGCggcgGCUGUCGGu -3'
miRNA:   3'- -GUCGUUGUCgCAgGCGaa--CGGCAGUC- -5'
11428 3' -55.7 NC_003085.1 + 33770 0.67 0.572295
Target:  5'- aGGCuugGGCGUCCGuCUUGcCCGaCAGa -3'
miRNA:   3'- gUCGuugUCGCAGGC-GAAC-GGCaGUC- -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.