miRNA display CGI


Results 1 - 20 of 259 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
14228 3' -68.6 NC_003521.1 + 163 0.66 0.48795
Target:  5'- -aGUCCCCGCgaCGaCCC--GCCGgCCCGAa -3'
miRNA:   3'- gaCGGGGGCG--GC-GGGcaCGGC-GGGCU- -5'
14228 3' -68.6 NC_003521.1 + 203 0.66 0.479477
Target:  5'- -gGCCggCCCGCCGCac--GCCGCCgCGGa -3'
miRNA:   3'- gaCGG--GGGCGGCGggcaCGGCGG-GCU- -5'
14228 3' -68.6 NC_003521.1 + 989 0.66 0.479477
Target:  5'- uCUGCUCCCGUgGgCCG-GCCGUaCGGc -3'
miRNA:   3'- -GACGGGGGCGgCgGGCaCGGCGgGCU- -5'
14228 3' -68.6 NC_003521.1 + 1273 0.66 0.505103
Target:  5'- gCUGaCCCuaGCCGCCCGcGaCGCCgaCGAa -3'
miRNA:   3'- -GAC-GGGggCGGCGGGCaCgGCGG--GCU- -5'
14228 3' -68.6 NC_003521.1 + 1382 0.68 0.362325
Target:  5'- gCUGUCCCCGa-GCCCGcGCUGCUgCGGa -3'
miRNA:   3'- -GACGGGGGCggCGGGCaCGGCGG-GCU- -5'
14228 3' -68.6 NC_003521.1 + 2361 0.73 0.192369
Target:  5'- -cGUCUCCGCCccGCCCGccgagGCCGCCCu- -3'
miRNA:   3'- gaCGGGGGCGG--CGGGCa----CGGCGGGcu -5'
14228 3' -68.6 NC_003521.1 + 3104 0.67 0.437451
Target:  5'- -gGCCCCCGgguucauCCaGCCCGUGUgcaUGCCUGc -3'
miRNA:   3'- gaCGGGGGC-------GG-CGGGCACG---GCGGGCu -5'
14228 3' -68.6 NC_003521.1 + 3653 0.66 0.462753
Target:  5'- -gGCCgCCGCCGUCUGccucgGCgGCCgGGa -3'
miRNA:   3'- gaCGGgGGCGGCGGGCa----CGgCGGgCU- -5'
14228 3' -68.6 NC_003521.1 + 6866 0.68 0.361614
Target:  5'- -aGCCCCUGCCGCucauuuCCGUGUUaggcaucuacucgGCCUGGg -3'
miRNA:   3'- gaCGGGGGCGGCG------GGCACGG-------------CGGGCU- -5'
14228 3' -68.6 NC_003521.1 + 11557 0.67 0.446339
Target:  5'- -cGCCUCCGgCGCCguCGUGC-GCCgGAc -3'
miRNA:   3'- gaCGGGGGCgGCGG--GCACGgCGGgCU- -5'
14228 3' -68.6 NC_003521.1 + 11831 0.69 0.341398
Target:  5'- -aGCUCCgUGCUGCCgGUccugcGCCGCCCGc -3'
miRNA:   3'- gaCGGGG-GCGGCGGgCA-----CGGCGGGCu -5'
14228 3' -68.6 NC_003521.1 + 13958 0.72 0.196695
Target:  5'- gCUGCCCUCGCUggaGCCCugauggGCCuGCCCGGc -3'
miRNA:   3'- -GACGGGGGCGG---CGGGca----CGG-CGGGCU- -5'
14228 3' -68.6 NC_003521.1 + 14220 0.71 0.241631
Target:  5'- -aGCCCCugaCGCCGCUgGgcuacgccgugauccUGCUGCCCGAu -3'
miRNA:   3'- gaCGGGG---GCGGCGGgC---------------ACGGCGGGCU- -5'
14228 3' -68.6 NC_003521.1 + 16204 0.68 0.355252
Target:  5'- -gGCCCUucgagguggCGgCGCCC-UGCCGCCUGGc -3'
miRNA:   3'- gaCGGGG---------GCgGCGGGcACGGCGGGCU- -5'
14228 3' -68.6 NC_003521.1 + 18111 0.71 0.234432
Target:  5'- -gGCCUcaaccuggugauCCGCaCGCCCG-GCCGCaCCGAg -3'
miRNA:   3'- gaCGGG------------GGCG-GCGGGCaCGGCG-GGCU- -5'
14228 3' -68.6 NC_003521.1 + 18434 0.7 0.272278
Target:  5'- cCUGCUCaagacgCGCgGCCUGUGCCGCuUCGAc -3'
miRNA:   3'- -GACGGGg-----GCGgCGGGCACGGCG-GGCU- -5'
14228 3' -68.6 NC_003521.1 + 21119 0.67 0.406781
Target:  5'- uUGCCUCCGCUGCCgaCGacCCGCCagaGAu -3'
miRNA:   3'- gACGGGGGCGGCGG--GCacGGCGGg--CU- -5'
14228 3' -68.6 NC_003521.1 + 21359 0.67 0.422342
Target:  5'- gCUGCUaUgGUCGCUCGUGCCGCagcugaCCGAg -3'
miRNA:   3'- -GACGGgGgCGGCGGGCACGGCG------GGCU- -5'
14228 3' -68.6 NC_003521.1 + 22118 0.69 0.325955
Target:  5'- -cGCCgCCGCCGCCgucuccuccgccuuCGccGCCGCCCu- -3'
miRNA:   3'- gaCGGgGGCGGCGG--------------GCa-CGGCGGGcu -5'
14228 3' -68.6 NC_003521.1 + 22600 0.68 0.384127
Target:  5'- -gGCCCCUGCgguCGCCUGaccuccGuuGCCCGGg -3'
miRNA:   3'- gaCGGGGGCG---GCGGGCa-----CggCGGGCU- -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.