miRNA display CGI


Results 1 - 20 of 34 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
18373 3' -54.9 NC_004681.1 + 26535 0.66 0.840839
Target:  5'- uGGCGGCGcGAAGgggcUUCCCGaugGGAUGg -3'
miRNA:   3'- gUCGUUGCaCUUCa---AGGGGCg--CCUGC- -5'
18373 3' -54.9 NC_004681.1 + 14547 0.66 0.817948
Target:  5'- -cGCGGCGUucgccuccgCCUCGCGGGCGg -3'
miRNA:   3'- guCGUUGCAcuucaa---GGGGCGCCUGC- -5'
18373 3' -54.9 NC_004681.1 + 18706 0.66 0.814311
Target:  5'- cCAGCggUGUucuc--CCCCGCGGGCu -3'
miRNA:   3'- -GUCGuuGCAcuucaaGGGGCGCCUGc -5'
18373 3' -54.9 NC_004681.1 + 17422 0.66 0.805092
Target:  5'- -cGCGcugauccuGCGUGuAGcgUCCCGCGGGCa -3'
miRNA:   3'- guCGU--------UGCACuUCaaGGGGCGCCUGc -5'
18373 3' -54.9 NC_004681.1 + 2028 0.66 0.805092
Target:  5'- aGGUGGuCGUGGAGggcggCCgcaCCGCGGACa -3'
miRNA:   3'- gUCGUU-GCACUUCaa---GG---GGCGCCUGc -5'
18373 3' -54.9 NC_004681.1 + 32485 0.67 0.795699
Target:  5'- uCGGaUGGCGUGAAGcgCgaCGCGGGCGa -3'
miRNA:   3'- -GUC-GUUGCACUUCaaGggGCGCCUGC- -5'
18373 3' -54.9 NC_004681.1 + 73793 0.67 0.776438
Target:  5'- aGGCAACGUGAccacgucacGG-UCUUCGCGGGa- -3'
miRNA:   3'- gUCGUUGCACU---------UCaAGGGGCGCCUgc -5'
18373 3' -54.9 NC_004681.1 + 72345 0.67 0.776438
Target:  5'- -cGCGccauCGUGGAGUccaucaaccgCCgCGCGGACGg -3'
miRNA:   3'- guCGUu---GCACUUCAa---------GGgGCGCCUGC- -5'
18373 3' -54.9 NC_004681.1 + 16294 0.67 0.766588
Target:  5'- cCAGCucCccGAGGgcaUCCCCGCGGcCGg -3'
miRNA:   3'- -GUCGuuGcaCUUCa--AGGGGCGCCuGC- -5'
18373 3' -54.9 NC_004681.1 + 48013 0.67 0.756607
Target:  5'- uUAGCGACGUGcagauGGUUgagccCCCCGCcuggGGGCu -3'
miRNA:   3'- -GUCGUUGCACu----UCAA-----GGGGCG----CCUGc -5'
18373 3' -54.9 NC_004681.1 + 54667 0.67 0.756607
Target:  5'- gGGCAGCuggcUGAuGGUUCCCaccggGCGGAUGa -3'
miRNA:   3'- gUCGUUGc---ACU-UCAAGGGg----CGCCUGC- -5'
18373 3' -54.9 NC_004681.1 + 61834 0.68 0.725978
Target:  5'- uGGC-GCGcGAGGgcggccUCCuuGCGGACGg -3'
miRNA:   3'- gUCGuUGCaCUUCa-----AGGggCGCCUGC- -5'
18373 3' -54.9 NC_004681.1 + 16455 0.68 0.705096
Target:  5'- uCGGCGugGUGgcGUUccagccCCCCaCGGACu -3'
miRNA:   3'- -GUCGUugCACuuCAA------GGGGcGCCUGc -5'
18373 3' -54.9 NC_004681.1 + 60319 0.68 0.698775
Target:  5'- -cGCAcaaguccgccacuagGCGUGA---UCCCCGCGcGGCGg -3'
miRNA:   3'- guCGU---------------UGCACUucaAGGGGCGC-CUGC- -5'
18373 3' -54.9 NC_004681.1 + 7187 0.69 0.683942
Target:  5'- cCAGCGuUGaGGAGUUCCCgGUGGGgGg -3'
miRNA:   3'- -GUCGUuGCaCUUCAAGGGgCGCCUgC- -5'
18373 3' -54.9 NC_004681.1 + 57457 0.69 0.67329
Target:  5'- uGGgAACGagcccuUGggGcUCCCCGCGGuACGc -3'
miRNA:   3'- gUCgUUGC------ACuuCaAGGGGCGCC-UGC- -5'
18373 3' -54.9 NC_004681.1 + 3745 0.69 0.66688
Target:  5'- gCGGCGACGUcGAAGgcgagggcggccugcUUCUugUCGCGGGCGa -3'
miRNA:   3'- -GUCGUUGCA-CUUC---------------AAGG--GGCGCCUGC- -5'
18373 3' -54.9 NC_004681.1 + 7730 0.69 0.651883
Target:  5'- cCAuCGAgGUGGAGgUCCCCGaGGGCGa -3'
miRNA:   3'- -GUcGUUgCACUUCaAGGGGCgCCUGC- -5'
18373 3' -54.9 NC_004681.1 + 71547 0.69 0.65081
Target:  5'- uUAGCcACuaccucuGUG-AGUUCCgCGCGGACGg -3'
miRNA:   3'- -GUCGuUG-------CACuUCAAGGgGCGCCUGC- -5'
18373 3' -54.9 NC_004681.1 + 2211 0.7 0.619666
Target:  5'- uCAGCgGGgGUGGccAGUaCCCCGUGGGCa -3'
miRNA:   3'- -GUCG-UUgCACU--UCAaGGGGCGCCUGc -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.