miRNA display CGI


Results 1 - 20 of 72 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
14608 3' -64 NC_003521.1 + 2216 0.68 0.578681
Target:  5'- gGCCcuacgcCCAGGCCCUgCuAGugCUGGAc -3'
miRNA:   3'- gCGGa-----GGUCCGGGAgGcUCugGGCCU- -5'
14608 3' -64 NC_003521.1 + 5788 0.68 0.578681
Target:  5'- gGCCUCaugagAGGaguacggCCUCCGAGACCUaGGGg -3'
miRNA:   3'- gCGGAGg----UCCg------GGAGGCUCUGGG-CCU- -5'
14608 3' -64 NC_003521.1 + 7397 0.67 0.644092
Target:  5'- cCGCgUCgAGGCCgUCgGAGcCaCCGGGg -3'
miRNA:   3'- -GCGgAGgUCCGGgAGgCUCuG-GGCCU- -5'
14608 3' -64 NC_003521.1 + 17464 0.69 0.514804
Target:  5'- uCGCUgcugaCCaAGGCCgCcgCCGAGGCCUGGGg -3'
miRNA:   3'- -GCGGa----GG-UCCGG-Ga-GGCUCUGGGCCU- -5'
14608 3' -64 NC_003521.1 + 18190 0.71 0.397261
Target:  5'- gCGCCUgCcGGCCCUUCGAucacaugucGGCCgCGGAg -3'
miRNA:   3'- -GCGGAgGuCCGGGAGGCU---------CUGG-GCCU- -5'
14608 3' -64 NC_003521.1 + 20982 0.68 0.587973
Target:  5'- uGCUcUCGGGCCCgcacuggaUCCGGGuCUCGGAg -3'
miRNA:   3'- gCGGaGGUCCGGG--------AGGCUCuGGGCCU- -5'
14608 3' -64 NC_003521.1 + 24105 0.68 0.587973
Target:  5'- cCGCCaaUCCGGGCCg-CCaGAGACguUCGGAg -3'
miRNA:   3'- -GCGG--AGGUCCGGgaGG-CUCUG--GGCCU- -5'
14608 3' -64 NC_003521.1 + 27381 0.66 0.699912
Target:  5'- aCGCCUUCaAGGCCCgucgCUggGAGACCaucugcucgCGGGu -3'
miRNA:   3'- -GCGGAGG-UCCGGGa---GG--CUCUGG---------GCCU- -5'
14608 3' -64 NC_003521.1 + 34993 0.67 0.634724
Target:  5'- gGUCUCCGGGgCCagCGAGcgcuugcgucguGCCCGGc -3'
miRNA:   3'- gCGGAGGUCCgGGagGCUC------------UGGGCCu -5'
14608 3' -64 NC_003521.1 + 35615 0.67 0.653453
Target:  5'- cCGCCUgCcGGCCCUggaCGGGcCuCCGGAc -3'
miRNA:   3'- -GCGGAgGuCCGGGAg--GCUCuG-GGCCU- -5'
14608 3' -64 NC_003521.1 + 42537 0.66 0.699912
Target:  5'- aGCCccCCAgcGGUCCUCCGcGacGCCCGGc -3'
miRNA:   3'- gCGGa-GGU--CCGGGAGGCuC--UGGGCCu -5'
14608 3' -64 NC_003521.1 + 43653 0.7 0.453976
Target:  5'- cCGCCUCCA-GCCCUgCC-AGGCCCagcgcGGAa -3'
miRNA:   3'- -GCGGAGGUcCGGGA-GGcUCUGGG-----CCU- -5'
14608 3' -64 NC_003521.1 + 56444 0.71 0.392615
Target:  5'- cCGCCUCguGGCCCaggUCCGAGaggcgccgcgccacgGCCCGc- -3'
miRNA:   3'- -GCGGAGguCCGGG---AGGCUC---------------UGGGCcu -5'
14608 3' -64 NC_003521.1 + 61636 0.71 0.410615
Target:  5'- gCGCCUCC-GGCUUUCUGGGACCgcacuaccgcaugcUGGAa -3'
miRNA:   3'- -GCGGAGGuCCGGGAGGCUCUGG--------------GCCU- -5'
14608 3' -64 NC_003521.1 + 67511 0.67 0.657194
Target:  5'- gGCC-CCAGGUgUcgcugagcaagcuguUCUGGGACUCGGAg -3'
miRNA:   3'- gCGGaGGUCCGgG---------------AGGCUCUGGGCCU- -5'
14608 3' -64 NC_003521.1 + 70979 0.66 0.690689
Target:  5'- -aCCggCCAGGCCCugUCCGuggugGGACCCGu- -3'
miRNA:   3'- gcGGa-GGUCCGGG--AGGC-----UCUGGGCcu -5'
14608 3' -64 NC_003521.1 + 73483 0.67 0.634724
Target:  5'- uCGUCUUCuacgAGGCcgagcuCCUCCucGACCCGGAg -3'
miRNA:   3'- -GCGGAGG----UCCG------GGAGGcuCUGGGCCU- -5'
14608 3' -64 NC_003521.1 + 75855 0.66 0.709088
Target:  5'- cCGuCCUCCaugaaagaGGGCCCUCuccggcgacgCGAGcCgCCGGAg -3'
miRNA:   3'- -GC-GGAGG--------UCCGGGAG----------GCUCuG-GGCCU- -5'
14608 3' -64 NC_003521.1 + 84703 0.7 0.437316
Target:  5'- -aCCUCCAGGCcggCCUCCG-GugCCaGGAu -3'
miRNA:   3'- gcGGAGGUCCG---GGAGGCuCugGG-CCU- -5'
14608 3' -64 NC_003521.1 + 85485 0.67 0.597291
Target:  5'- uGCCggugCCcGcGCCCccgCCGGGACCCGcGGu -3'
miRNA:   3'- gCGGa---GGuC-CGGGa--GGCUCUGGGC-CU- -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.