miRNA display CGI


Results 1 - 18 of 18 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
12123 5' -59.4 NC_003309.1 + 5555 0.66 0.480625
Target:  5'- cGCCgauCGCGG-CGGUgagGUCGCCGACc -3'
miRNA:   3'- aUGG---GUGCCaGUCGaa-CGGCGGCUGc -5'
12123 5' -59.4 NC_003309.1 + 31426 0.66 0.480625
Target:  5'- cGCUCGCuGGcgacCAGUgcgcaGCCGCCGGCGu -3'
miRNA:   3'- aUGGGUG-CCa---GUCGaa---CGGCGGCUGC- -5'
12123 5' -59.4 NC_003309.1 + 31925 0.66 0.46971
Target:  5'- cGCCCGCGGcCGGCgccagcgcgucuuUUGCuCGUCGcuuGCGg -3'
miRNA:   3'- aUGGGUGCCaGUCG-------------AACG-GCGGC---UGC- -5'
12123 5' -59.4 NC_003309.1 + 22998 0.66 0.451163
Target:  5'- -gUCaGCGaGUCGacGCUUGCCGCCGAUc -3'
miRNA:   3'- auGGgUGC-CAGU--CGAACGGCGGCUGc -5'
12123 5' -59.4 NC_003309.1 + 15339 0.67 0.432081
Target:  5'- cACCCGCaGcGUCGGCgaugGCUGCUGcGCGu -3'
miRNA:   3'- aUGGGUG-C-CAGUCGaa--CGGCGGC-UGC- -5'
12123 5' -59.4 NC_003309.1 + 5070 0.67 0.432081
Target:  5'- cAUgCACGGgcgCGGCggccggUGCCGCgaCGGCGg -3'
miRNA:   3'- aUGgGUGCCa--GUCGa-----ACGGCG--GCUGC- -5'
12123 5' -59.4 NC_003309.1 + 22409 0.67 0.422719
Target:  5'- uUGCCCAaCGcuUCGGCaUGCCGCUGcGCGu -3'
miRNA:   3'- -AUGGGU-GCc-AGUCGaACGGCGGC-UGC- -5'
12123 5' -59.4 NC_003309.1 + 39247 0.67 0.395379
Target:  5'- aGCCCGCGGaUCAGCaucgcGCacgaagGUCGACGa -3'
miRNA:   3'- aUGGGUGCC-AGUCGaa---CGg-----CGGCUGC- -5'
12123 5' -59.4 NC_003309.1 + 5854 0.68 0.344248
Target:  5'- -uCCCAcCGGguagcccuUCAGCaUGCCGuuGGCGa -3'
miRNA:   3'- auGGGU-GCC--------AGUCGaACGGCggCUGC- -5'
12123 5' -59.4 NC_003309.1 + 7051 0.69 0.336202
Target:  5'- gGCCCACGGUCGcGCaUGCaCGaCCcACGc -3'
miRNA:   3'- aUGGGUGCCAGU-CGaACG-GC-GGcUGC- -5'
12123 5' -59.4 NC_003309.1 + 10021 0.7 0.27681
Target:  5'- uUACCgACGGUCAGCUUucccucuucgGCCaUCGACu -3'
miRNA:   3'- -AUGGgUGCCAGUCGAA----------CGGcGGCUGc -5'
12123 5' -59.4 NC_003309.1 + 41299 0.71 0.23198
Target:  5'- cGCCUGCGGgaugggaaCGGCUUGaCGCUGGCGg -3'
miRNA:   3'- aUGGGUGCCa-------GUCGAACgGCGGCUGC- -5'
12123 5' -59.4 NC_003309.1 + 6356 0.72 0.214161
Target:  5'- --gCCGCGGUgGGCUUGgcgcuuucgcccuUCGCCGACGc -3'
miRNA:   3'- augGGUGCCAgUCGAAC-------------GGCGGCUGC- -5'
12123 5' -59.4 NC_003309.1 + 19392 0.73 0.178689
Target:  5'- aUGCCCgccGCGGUCAGCgacaCGaCCGACGg -3'
miRNA:   3'- -AUGGG---UGCCAGUCGaacgGC-GGCUGC- -5'
12123 5' -59.4 NC_003309.1 + 44184 0.74 0.148129
Target:  5'- cGCCCGCGG-CGcGC-UGCCGCuCGGCGu -3'
miRNA:   3'- aUGGGUGCCaGU-CGaACGGCG-GCUGC- -5'
12123 5' -59.4 NC_003309.1 + 16878 0.74 0.144173
Target:  5'- aGCCCGCcG-C-GCUUGCUGCCGACGa -3'
miRNA:   3'- aUGGGUGcCaGuCGAACGGCGGCUGC- -5'
12123 5' -59.4 NC_003309.1 + 17522 0.75 0.122403
Target:  5'- cACCCACGGcgcgucggacgUCAGCg-GCaCGCCGACGc -3'
miRNA:   3'- aUGGGUGCC-----------AGUCGaaCG-GCGGCUGC- -5'
12123 5' -59.4 NC_003309.1 + 14176 1.07 0.000511
Target:  5'- cUACCCACGGUCAGCUUGCCGCCGACGa -3'
miRNA:   3'- -AUGGGUGCCAGUCGAACGGCGGCUGC- -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.