miRNA display CGI


Results 1 - 19 of 19 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
12027 3' -59.3 NC_003278.1 + 27308 0.66 0.443888
Target:  5'- gGUCCaGuuGGUUGGUuGCGgccgCGAGGUc -3'
miRNA:   3'- gCAGG-CgcCCAGCCGuUGCa---GCUCCG- -5'
12027 3' -59.3 NC_003278.1 + 30866 0.66 0.443888
Target:  5'- uGUCgCGCuGGGcgaUCGGCAgcagGCGUuucagcgcggUGAGGCc -3'
miRNA:   3'- gCAG-GCG-CCC---AGCCGU----UGCA----------GCUCCG- -5'
12027 3' -59.3 NC_003278.1 + 29549 0.66 0.442924
Target:  5'- aGUCCuuGGcGUCGGUGGCGaucugcagcuugaUCGAGcGCu -3'
miRNA:   3'- gCAGGcgCC-CAGCCGUUGC-------------AGCUC-CG- -5'
12027 3' -59.3 NC_003278.1 + 22133 0.66 0.442924
Target:  5'- ---aC-CGGGUCGGCcuggcccAugGUCGAGGg -3'
miRNA:   3'- gcagGcGCCCAGCCG-------UugCAGCUCCg -5'
12027 3' -59.3 NC_003278.1 + 3001 0.66 0.434304
Target:  5'- --aCCGCGGGUCuGGUggUGgu--GGCg -3'
miRNA:   3'- gcaGGCGCCCAG-CCGuuGCagcuCCG- -5'
12027 3' -59.3 NC_003278.1 + 28110 0.66 0.434304
Target:  5'- cCG-CUGCGGGcgCGGCAaguGCGgCGAcaccuGGCa -3'
miRNA:   3'- -GCaGGCGCCCa-GCCGU---UGCaGCU-----CCG- -5'
12027 3' -59.3 NC_003278.1 + 9614 0.66 0.434304
Target:  5'- gCGcUCGCGGGaaagGGCGGCcUCGAGGg -3'
miRNA:   3'- -GCaGGCGCCCag--CCGUUGcAGCUCCg -5'
12027 3' -59.3 NC_003278.1 + 10440 0.66 0.397205
Target:  5'- -cUCgGUGGGcuUCGGCGGCGUCcacucGGCc -3'
miRNA:   3'- gcAGgCGCCC--AGCCGUUGCAGcu---CCG- -5'
12027 3' -59.3 NC_003278.1 + 22251 0.67 0.388254
Target:  5'- uGUCCGCGucUCGGUGACGcguUCGAucacccacaGGCc -3'
miRNA:   3'- gCAGGCGCccAGCCGUUGC---AGCU---------CCG- -5'
12027 3' -59.3 NC_003278.1 + 13313 0.68 0.329409
Target:  5'- aCGgg-GCGacGGUCGGCGuCGUUGAGGUa -3'
miRNA:   3'- -GCaggCGC--CCAGCCGUuGCAGCUCCG- -5'
12027 3' -59.3 NC_003278.1 + 9081 0.68 0.32156
Target:  5'- cCG-CCGCccuGGaGUCGGCca-GUUGGGGCg -3'
miRNA:   3'- -GCaGGCG---CC-CAGCCGuugCAGCUCCG- -5'
12027 3' -59.3 NC_003278.1 + 18289 0.68 0.32156
Target:  5'- -uUCCGCGGGggCGGCAugaACGgccCGgucaAGGCc -3'
miRNA:   3'- gcAGGCGCCCa-GCCGU---UGCa--GC----UCCG- -5'
12027 3' -59.3 NC_003278.1 + 32361 0.68 0.306284
Target:  5'- gGUgCauCGGGcCGGCGGCGUCGAuaucgccgGGCa -3'
miRNA:   3'- gCAgGc-GCCCaGCCGUUGCAGCU--------CCG- -5'
12027 3' -59.3 NC_003278.1 + 21353 0.69 0.291569
Target:  5'- cCGUCCaGCGcGUCGGCGGCGccgcgaUCGAcuGGUu -3'
miRNA:   3'- -GCAGG-CGCcCAGCCGUUGC------AGCU--CCG- -5'
12027 3' -59.3 NC_003278.1 + 32718 0.69 0.270544
Target:  5'- uGgCCGCGGGgaUCGGCGACGgaguaCGugccuuggccGGGCg -3'
miRNA:   3'- gCaGGCGCCC--AGCCGUUGCa----GC----------UCCG- -5'
12027 3' -59.3 NC_003278.1 + 21538 0.72 0.178478
Target:  5'- aCGcCCaGCGGGcCGGCcuggccGGCGcCGAGGCc -3'
miRNA:   3'- -GCaGG-CGCCCaGCCG------UUGCaGCUCCG- -5'
12027 3' -59.3 NC_003278.1 + 5764 0.74 0.124959
Target:  5'- aCGUCCugcagcaGCGGGUUGGCGGCG-CGGuuGGUg -3'
miRNA:   3'- -GCAGG-------CGCCCAGCCGUUGCaGCU--CCG- -5'
12027 3' -59.3 NC_003278.1 + 876 0.75 0.100297
Target:  5'- -cUCaGUGGGUCGGUAAUGUCG-GGCu -3'
miRNA:   3'- gcAGgCGCCCAGCCGUUGCAGCuCCG- -5'
12027 3' -59.3 NC_003278.1 + 31660 1.1 0.00024
Target:  5'- gCGUCCGCGGGUCGGCAACGUCGAGGCc -3'
miRNA:   3'- -GCAGGCGCCCAGCCGUUGCAGCUCCG- -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.