miRNA display CGI


Results 1 - 20 of 22 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
18295 3' -55.5 NC_004681.1 + 61206 0.66 0.784387
Target:  5'- gGCGacgGCCuGCCCACCUUGgguGAacCGCa -3'
miRNA:   3'- -UGCaa-CGG-CGGGUGGAGCau-CUa-GUG- -5'
18295 3' -55.5 NC_004681.1 + 59255 0.66 0.784387
Target:  5'- gACGUaggUGCCGuCCCGCUucucggCGUAGAUgGu -3'
miRNA:   3'- -UGCA---ACGGC-GGGUGGa-----GCAUCUAgUg -5'
18295 3' -55.5 NC_004681.1 + 17529 0.66 0.783416
Target:  5'- uGCGUUGCCcguccacauguugGCgCCACC-CGUGGggCGg -3'
miRNA:   3'- -UGCAACGG-------------CG-GGUGGaGCAUCuaGUg -5'
18295 3' -55.5 NC_004681.1 + 71665 0.67 0.744448
Target:  5'- uACGUUGCgGCCguCCgCGcGGAacUCACa -3'
miRNA:   3'- -UGCAACGgCGGguGGaGCaUCU--AGUG- -5'
18295 3' -55.5 NC_004681.1 + 39093 0.67 0.744448
Target:  5'- gACGUUGaCGCCUuCCUCGUcGGcCACc -3'
miRNA:   3'- -UGCAACgGCGGGuGGAGCAuCUaGUG- -5'
18295 3' -55.5 NC_004681.1 + 56111 0.67 0.734162
Target:  5'- uGCGgagGUCGCCCuCCUUGgcG-UCGCg -3'
miRNA:   3'- -UGCaa-CGGCGGGuGGAGCauCuAGUG- -5'
18295 3' -55.5 NC_004681.1 + 56769 0.67 0.723778
Target:  5'- cGCGggGCgagGCCCACCUguaCGUcuaccGGGUCGCc -3'
miRNA:   3'- -UGCaaCGg--CGGGUGGA---GCA-----UCUAGUG- -5'
18295 3' -55.5 NC_004681.1 + 58985 0.67 0.723778
Target:  5'- ----gGCCGCCCaggugcucgaagACCUCGUGGGggagggCGCc -3'
miRNA:   3'- ugcaaCGGCGGG------------UGGAGCAUCUa-----GUG- -5'
18295 3' -55.5 NC_004681.1 + 40669 0.67 0.713307
Target:  5'- cAUGUcGCCGUuuGCCUCGgcGA-CGCu -3'
miRNA:   3'- -UGCAaCGGCGggUGGAGCauCUaGUG- -5'
18295 3' -55.5 NC_004681.1 + 51679 0.67 0.702758
Target:  5'- cCGUUGCCGguggguugcUCCACCUCGgAGAggaACu -3'
miRNA:   3'- uGCAACGGC---------GGGUGGAGCaUCUag-UG- -5'
18295 3' -55.5 NC_004681.1 + 25162 0.67 0.692144
Target:  5'- aGCGaggUGCCGCCCGcgccgcCCUCugcGGUCACc -3'
miRNA:   3'- -UGCa--ACGGCGGGU------GGAGcauCUAGUG- -5'
18295 3' -55.5 NC_004681.1 + 30857 0.68 0.681473
Target:  5'- gACGgcacGCCGCCCGCCgaccCGcUGGAgcccCGCg -3'
miRNA:   3'- -UGCaa--CGGCGGGUGGa---GC-AUCUa---GUG- -5'
18295 3' -55.5 NC_004681.1 + 43876 0.68 0.681473
Target:  5'- cACGacucGCCGCCCugCUCG---GUCGCc -3'
miRNA:   3'- -UGCaa--CGGCGGGugGAGCaucUAGUG- -5'
18295 3' -55.5 NC_004681.1 + 46388 0.68 0.649231
Target:  5'- ----gGCUGCCCGCCguggaCGUAGA-CGCa -3'
miRNA:   3'- ugcaaCGGCGGGUGGa----GCAUCUaGUG- -5'
18295 3' -55.5 NC_004681.1 + 30243 0.7 0.552663
Target:  5'- cGCGccGCCugaGCCCgacccacaggccGCCUUGUAGAUCAUg -3'
miRNA:   3'- -UGCaaCGG---CGGG------------UGGAGCAUCUAGUG- -5'
18295 3' -55.5 NC_004681.1 + 61487 0.7 0.542133
Target:  5'- cUGUUGCCGCCgACCUU--GGA-CACg -3'
miRNA:   3'- uGCAACGGCGGgUGGAGcaUCUaGUG- -5'
18295 3' -55.5 NC_004681.1 + 44922 0.7 0.531671
Target:  5'- cACGgggGCCGCCCGuCUcgaugUCGUAGGUCu- -3'
miRNA:   3'- -UGCaa-CGGCGGGU-GG-----AGCAUCUAGug -5'
18295 3' -55.5 NC_004681.1 + 8876 0.72 0.451102
Target:  5'- gGCGaccUUGCCGaCCugCUCGUAGAcccgCGCg -3'
miRNA:   3'- -UGC---AACGGCgGGugGAGCAUCUa---GUG- -5'
18295 3' -55.5 NC_004681.1 + 7261 0.72 0.422639
Target:  5'- gACGcgGCCGUCCACCUCGgcgccGAgugCGCc -3'
miRNA:   3'- -UGCaaCGGCGGGUGGAGCau---CUa--GUG- -5'
18295 3' -55.5 NC_004681.1 + 13681 0.74 0.35231
Target:  5'- gGCGUgGCCGCCCgcgGCCUUGaAGcgCGCg -3'
miRNA:   3'- -UGCAaCGGCGGG---UGGAGCaUCuaGUG- -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.