miRNA display CGI


Results 1 - 17 of 17 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
27574 5' -55.4 NC_005882.1 + 26118 0.66 0.624268
Target:  5'- gCCGCGGUcauuuCCGGCAGagCCUUGGCc- -3'
miRNA:   3'- -GGUGCCAc----GGCUGUCggGGAAUUGuc -5'
27574 5' -55.4 NC_005882.1 + 30118 0.66 0.62314
Target:  5'- uUCGCGGUgacGCCGuagaccuGCAGCCCUuucgUUGACu- -3'
miRNA:   3'- -GGUGCCA---CGGC-------UGUCGGGG----AAUUGuc -5'
27574 5' -55.4 NC_005882.1 + 31449 0.67 0.557106
Target:  5'- uUCGCGGgcugcGCCGGCAGCCgCgucACGc -3'
miRNA:   3'- -GGUGCCa----CGGCUGUCGGgGaauUGUc -5'
27574 5' -55.4 NC_005882.1 + 30320 0.67 0.546081
Target:  5'- gUCGCGGUGCUccugGACAGCCggugCgagGACGGu -3'
miRNA:   3'- -GGUGCCACGG----CUGUCGGg---Gaa-UUGUC- -5'
27574 5' -55.4 NC_005882.1 + 30076 0.67 0.535128
Target:  5'- uUCGCGGUGCCGccGCcuuuGCCggCCUgGACGGc -3'
miRNA:   3'- -GGUGCCACGGC--UGu---CGG--GGAaUUGUC- -5'
27574 5' -55.4 NC_005882.1 + 28258 0.67 0.513462
Target:  5'- cCCAaGGUGCCGccgGCGGCCgCgcaGGCGGu -3'
miRNA:   3'- -GGUgCCACGGC---UGUCGGgGaa-UUGUC- -5'
27574 5' -55.4 NC_005882.1 + 11984 0.68 0.502764
Target:  5'- gCCACGG-GCgCGGCGGCgCCga-GCAa -3'
miRNA:   3'- -GGUGCCaCG-GCUGUCGgGGaauUGUc -5'
27574 5' -55.4 NC_005882.1 + 22638 0.68 0.492165
Target:  5'- -uGCGGUGCCGAuCAagccgaucaccGCCgacuucacgaCCUUGACGGg -3'
miRNA:   3'- ggUGCCACGGCU-GU-----------CGG----------GGAAUUGUC- -5'
27574 5' -55.4 NC_005882.1 + 12333 0.68 0.471284
Target:  5'- -gACGGcUGCCGGCGGCgCCgaucGGCAa -3'
miRNA:   3'- ggUGCC-ACGGCUGUCGgGGaa--UUGUc -5'
27574 5' -55.4 NC_005882.1 + 28318 0.68 0.471284
Target:  5'- gCGCGGccGCCGGCGGCaCCUUGggcuguACGGc -3'
miRNA:   3'- gGUGCCa-CGGCUGUCGgGGAAU------UGUC- -5'
27574 5' -55.4 NC_005882.1 + 13002 0.69 0.440834
Target:  5'- gCGCGG-GCCGgcgcaACAGCUCCggcGGCAGc -3'
miRNA:   3'- gGUGCCaCGGC-----UGUCGGGGaa-UUGUC- -5'
27574 5' -55.4 NC_005882.1 + 21667 0.69 0.430935
Target:  5'- aCACGGUGuCCGggagcGCGGCgCCUUccggucGACGGg -3'
miRNA:   3'- gGUGCCAC-GGC-----UGUCGgGGAA------UUGUC- -5'
27574 5' -55.4 NC_005882.1 + 17150 0.69 0.430935
Target:  5'- gCGCGaGUGCCGACgAGCUgCUcGGCAu -3'
miRNA:   3'- gGUGC-CACGGCUG-UCGGgGAaUUGUc -5'
27574 5' -55.4 NC_005882.1 + 31388 0.69 0.421167
Target:  5'- aCGCGGcUGCCGgcGCAGCCCgCgaaGACGa -3'
miRNA:   3'- gGUGCC-ACGGC--UGUCGGG-Gaa-UUGUc -5'
27574 5' -55.4 NC_005882.1 + 27653 0.7 0.36548
Target:  5'- gCCGCGGccugcgucgccaUGCCGGCGGCCgCgcgcGCGGc -3'
miRNA:   3'- -GGUGCC------------ACGGCUGUCGGgGaau-UGUC- -5'
27574 5' -55.4 NC_005882.1 + 17867 0.71 0.315087
Target:  5'- aCGCGGcaCCGGCAGCCCCagccguucGGCGGg -3'
miRNA:   3'- gGUGCCacGGCUGUCGGGGaa------UUGUC- -5'
27574 5' -55.4 NC_005882.1 + 9160 1.11 0.000432
Target:  5'- uCCACGGUGCCGACAGCCCCUUAACAGg -3'
miRNA:   3'- -GGUGCCACGGCUGUCGGGGAAUUGUC- -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.