miRNA display CGI


Results 21 - 36 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
11883 3' -64.7 NC_003266.2 + 22185 0.68 0.15473
Target:  5'- --aAGCCCGgCuGCGUGCCCaccauGGGCc -3'
miRNA:   3'- gcgUCGGGCgGuUGCACGGGgc---CCCG- -5'
11883 3' -64.7 NC_003266.2 + 8518 0.68 0.149467
Target:  5'- gCGCGGC--GCCGACGUGCCCCuGccaccacugccuccGGGUc -3'
miRNA:   3'- -GCGUCGggCGGUUGCACGGGG-C--------------CCCG- -5'
11883 3' -64.7 NC_003266.2 + 21247 0.68 0.142832
Target:  5'- uCGCGGCCgGCCGuguugacgaugGCGcagGCCaccuugugCGGGGCc -3'
miRNA:   3'- -GCGUCGGgCGGU-----------UGCa--CGGg-------GCCCCG- -5'
11883 3' -64.7 NC_003266.2 + 8416 0.68 0.13794
Target:  5'- cCGCuuccGCCCGCCAagaagaaacgggggACGguggucacuCCCCaGGGGCa -3'
miRNA:   3'- -GCGu---CGGGCGGU--------------UGCac-------GGGG-CCCCG- -5'
11883 3' -64.7 NC_003266.2 + 11760 0.69 0.121514
Target:  5'- -aCAGCCUG-CAGCGgGCCcugaCCGGGGCc -3'
miRNA:   3'- gcGUCGGGCgGUUGCaCGG----GGCCCCG- -5'
11883 3' -64.7 NC_003266.2 + 9346 0.69 0.118262
Target:  5'- uCGCAGCguaaagacgCCGCCGcgcaucuccAgGUGgCCCGGGGg -3'
miRNA:   3'- -GCGUCG---------GGCGGU---------UgCACgGGGCCCCg -5'
11883 3' -64.7 NC_003266.2 + 16866 0.69 0.115091
Target:  5'- gGCuGGCCgCGCCGuACuUGCgCCGGGGUu -3'
miRNA:   3'- gCG-UCGG-GCGGU-UGcACGgGGCCCCG- -5'
11883 3' -64.7 NC_003266.2 + 8993 0.69 0.115091
Target:  5'- aGCGGCauuuCGCUGACGUcGCCCa-GGGCu -3'
miRNA:   3'- gCGUCGg---GCGGUUGCA-CGGGgcCCCG- -5'
11883 3' -64.7 NC_003266.2 + 13884 0.69 0.114778
Target:  5'- uGCAGCCC-CCGcuggaggcuccuuACGUGCCaCCGcGGUa -3'
miRNA:   3'- gCGUCGGGcGGU-------------UGCACGG-GGCcCCG- -5'
11883 3' -64.7 NC_003266.2 + 26411 0.7 0.106048
Target:  5'- aGUAGUCCugggcggcGCCGGCGgccagGCCCaucuGGGGCu -3'
miRNA:   3'- gCGUCGGG--------CGGUUGCa----CGGGg---CCCCG- -5'
11883 3' -64.7 NC_003266.2 + 25225 0.7 0.103185
Target:  5'- gCGCaAGUagGCCGAgGUccacaGCCCCGGGGUg -3'
miRNA:   3'- -GCG-UCGggCGGUUgCA-----CGGGGCCCCG- -5'
11883 3' -64.7 NC_003266.2 + 15884 0.71 0.080509
Target:  5'- aGCGGCCauaGCCAGCaUGUCCCGcccgcGGCg -3'
miRNA:   3'- gCGUCGGg--CGGUUGcACGGGGCc----CCG- -5'
11883 3' -64.7 NC_003266.2 + 6493 0.72 0.076159
Target:  5'- gCGCGcGCUCGUagggacuaaggGGCGUGCCCCaGGGCa -3'
miRNA:   3'- -GCGU-CGGGCGg----------UUGCACGGGGcCCCG- -5'
11883 3' -64.7 NC_003266.2 + 12470 0.72 0.072034
Target:  5'- uGUAGUCCuCCug---GCCCCGGGGCa -3'
miRNA:   3'- gCGUCGGGcGGuugcaCGGGGCCCCG- -5'
11883 3' -64.7 NC_003266.2 + 6600 0.74 0.051311
Target:  5'- uGCGGCauguaCGCCuccGCGcucacccaccccaUGCCCUGGGGCa -3'
miRNA:   3'- gCGUCGg----GCGGu--UGC-------------ACGGGGCCCCG- -5'
11883 3' -64.7 NC_003266.2 + 12396 1.1 0.000064
Target:  5'- aCGCAGCCCGCCAACGUGCCCCGGGGCc -3'
miRNA:   3'- -GCGUCGGGCGGUUGCACGGGGCCCCG- -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.