miRNA display CGI


Results 1 - 14 of 14 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
20640 5' -53.9 NC_004688.1 + 90556 0.66 0.935753
Target:  5'- gCCGAGGccgacCGCGGGGUcgg-CCAgguugUGCa -3'
miRNA:   3'- -GGUUCCac---GCGCCCCGaaaaGGU-----ACG- -5'
20640 5' -53.9 NC_004688.1 + 84091 0.66 0.919384
Target:  5'- ---cGGUuaGCGGGGCUggcCCGcgGCg -3'
miRNA:   3'- gguuCCAcgCGCCCCGAaaaGGUa-CG- -5'
20640 5' -53.9 NC_004688.1 + 81066 0.66 0.917028
Target:  5'- uCCAggaAGGUGCcCGuGGGCcccacgauccCCAUGCg -3'
miRNA:   3'- -GGU---UCCACGcGC-CCCGaaaa------GGUACG- -5'
20640 5' -53.9 NC_004688.1 + 70954 0.66 0.913418
Target:  5'- uUCAcGGUGcCGuCGGGGUUUUuggcguaggUCCAgucgGCg -3'
miRNA:   3'- -GGUuCCAC-GC-GCCCCGAAA---------AGGUa---CG- -5'
20640 5' -53.9 NC_004688.1 + 48245 0.66 0.906562
Target:  5'- aCCGAGGUGggucuacgcgccuUGCGGcuaacGGCgaggUUUCUAUGUc -3'
miRNA:   3'- -GGUUCCAC-------------GCGCC-----CCGa---AAAGGUACG- -5'
20640 5' -53.9 NC_004688.1 + 27021 0.67 0.903345
Target:  5'- aCAGGGUaaugGuCGCGGGGaucuucacaaCCGUGCa -3'
miRNA:   3'- gGUUCCA----C-GCGCCCCgaaaa-----GGUACG- -5'
20640 5' -53.9 NC_004688.1 + 65265 0.67 0.900726
Target:  5'- cCUggGGaGCGCGGGcCUcgUCUAUGg -3'
miRNA:   3'- -GGuuCCaCGCGCCCcGAaaAGGUACg -5'
20640 5' -53.9 NC_004688.1 + 27959 0.67 0.894006
Target:  5'- aCCGAGGUagGCGGGGaccggCCAgugGCc -3'
miRNA:   3'- -GGUUCCAcgCGCCCCgaaaaGGUa--CG- -5'
20640 5' -53.9 NC_004688.1 + 3199 0.68 0.828404
Target:  5'- aCCAAGGUaaGCGUGccaagugcaaGGGUUgcaaggguccagUCCAUGCg -3'
miRNA:   3'- -GGUUCCA--CGCGC----------CCCGAaa----------AGGUACG- -5'
20640 5' -53.9 NC_004688.1 + 56423 0.69 0.814245
Target:  5'- cCgGAGGUcGUGCGGGGUga-UCCGggggaagGCu -3'
miRNA:   3'- -GgUUCCA-CGCGCCCCGaaaAGGUa------CG- -5'
20640 5' -53.9 NC_004688.1 + 23410 0.69 0.795914
Target:  5'- uCCGgaAGGUcGC-CGGGGCUcaUCCA-GCa -3'
miRNA:   3'- -GGU--UCCA-CGcGCCCCGAaaAGGUaCG- -5'
20640 5' -53.9 NC_004688.1 + 9763 0.7 0.757434
Target:  5'- aCAAGGUGgagcUGCGGGcGCUgguggagUCCAaGCu -3'
miRNA:   3'- gGUUCCAC----GCGCCC-CGAaa-----AGGUaCG- -5'
20640 5' -53.9 NC_004688.1 + 62099 0.72 0.612066
Target:  5'- -gAGGGUGCGgGGGGCcucgUCCGccGCc -3'
miRNA:   3'- ggUUCCACGCgCCCCGaaa-AGGUa-CG- -5'
20640 5' -53.9 NC_004688.1 + 93842 0.73 0.559597
Target:  5'- aCCAGGGcuUGCGUGGGGCauggaUgGUGCa -3'
miRNA:   3'- -GGUUCC--ACGCGCCCCGaaaa-GgUACG- -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.