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 + 17394 0.66 0.661259
Target:  5'- uCGGCu-CAG-GUCCGCaUUGCUGUCc- -3'
miRNA:   3'- -GUCGuuGUCgCAGGCG-AACGGCAGuc -5'
11428 3' -55.7 NC_003085.1 + 26496 0.66 0.661259
Target:  5'- gGGUGGCAGacugggccggcuCGUCCgGCUUcGCCGUCGc -3'
miRNA:   3'- gUCGUUGUC------------GCAGG-CGAA-CGGCAGUc -5'
11428 3' -55.7 NC_003085.1 + 43095 0.66 0.661259
Target:  5'- -----cCAGCGUCCGCUgucacaccGCUGUCAc -3'
miRNA:   3'- gucguuGUCGCAGGCGAa-------CGGCAGUc -5'
11428 3' -55.7 NC_003085.1 + 45115 0.66 0.661259
Target:  5'- -cGCGcGCGGCGUagGCaUUGCCGUCGu -3'
miRNA:   3'- guCGU-UGUCGCAggCG-AACGGCAGUc -5'
11428 3' -55.7 NC_003085.1 + 34520 0.66 0.638977
Target:  5'- gCGGCGACAGCGUCaGCaacacagcgGCCG-CGa -3'
miRNA:   3'- -GUCGUUGUCGCAGgCGaa-------CGGCaGUc -5'
11428 3' -55.7 NC_003085.1 + 34600 0.66 0.638977
Target:  5'- cCGGCAGCA-CGUCCuGCUUcuCCGUCu- -3'
miRNA:   3'- -GUCGUUGUcGCAGG-CGAAc-GGCAGuc -5'
11428 3' -55.7 NC_003085.1 + 41426 0.66 0.638977
Target:  5'- gCGGCAACAGCcauaCGCUcuCCGUCGa -3'
miRNA:   3'- -GUCGUUGUCGcag-GCGAacGGCAGUc -5'
11428 3' -55.7 NC_003085.1 + 27700 0.66 0.627821
Target:  5'- -cGCGucugGGCGUCCGCccGCUGUCGc -3'
miRNA:   3'- guCGUug--UCGCAGGCGaaCGGCAGUc -5'
11428 3' -55.7 NC_003085.1 + 10418 0.66 0.626706
Target:  5'- gCAGCAgguacgcGCAGCGcucgcccaCGCaUGCCGUCGc -3'
miRNA:   3'- -GUCGU-------UGUCGCag------GCGaACGGCAGUc -5'
11428 3' -55.7 NC_003085.1 + 37343 0.66 0.616669
Target:  5'- uCGGCAccgaaggccucgGgGGCGUCCGaCUUGCgcgCGUCAc -3'
miRNA:   3'- -GUCGU------------UgUCGCAGGC-GAACG---GCAGUc -5'
11428 3' -55.7 NC_003085.1 + 12002 0.66 0.616669
Target:  5'- gCGGCAGCAGCGgccugaCGCUggcgcaccUGCCGg--- -3'
miRNA:   3'- -GUCGUUGUCGCag----GCGA--------ACGGCaguc -5'
11428 3' -55.7 NC_003085.1 + 1531 0.66 0.616669
Target:  5'- aGGCGugacucCAGCGUCUGCUgucgcgagGCCGUg-- -3'
miRNA:   3'- gUCGUu-----GUCGCAGGCGAa-------CGGCAguc -5'
11428 3' -55.7 NC_003085.1 + 3481 0.66 0.616669
Target:  5'- aCGGCGACGucuGCGUCgacuacaaGCUcGCCGUCuGg -3'
miRNA:   3'- -GUCGUUGU---CGCAGg-------CGAaCGGCAGuC- -5'
11428 3' -55.7 NC_003085.1 + 1069 0.66 0.605531
Target:  5'- aGGCAgacaauGCGGCG-CUGCUcGCCGcgcUCAGg -3'
miRNA:   3'- gUCGU------UGUCGCaGGCGAaCGGC---AGUC- -5'
11428 3' -55.7 NC_003085.1 + 29241 0.66 0.605531
Target:  5'- uGGCGACguaccggaaGGCGUCCGCgucgugGCUGgccCAGu -3'
miRNA:   3'- gUCGUUG---------UCGCAGGCGaa----CGGCa--GUC- -5'
11428 3' -55.7 NC_003085.1 + 12377 0.67 0.576705
Target:  5'- gAGCGACuGCGcgccguccaccugcaUCCGCacGUCGUCGGc -3'
miRNA:   3'- gUCGUUGuCGC---------------AGGCGaaCGGCAGUC- -5'
11428 3' -55.7 NC_003085.1 + 33770 0.67 0.572295
Target:  5'- aGGCuugGGCGUCCGuCUUGcCCGaCAGa -3'
miRNA:   3'- gUCGuugUCGCAGGC-GAAC-GGCaGUC- -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 + 32449 0.67 0.550374
Target:  5'- -cGCgAGCAGCGcccaUCCGCgcuucucgucGCCGUCGGc -3'
miRNA:   3'- guCG-UUGUCGC----AGGCGaa--------CGGCAGUC- -5'
11428 3' -55.7 NC_003085.1 + 42137 0.68 0.53951
Target:  5'- -cGCGuccuCAGCcgccUCCGCgaugGCCGUCGGa -3'
miRNA:   3'- guCGUu---GUCGc---AGGCGaa--CGGCAGUC- -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.