miRNA display CGI


Results 1 - 20 of 81 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
5501 3' -58.9 NC_001798.1 + 107430 0.78 0.193068
Target:  5'- -cGGggGUCGCCGCgGCGaCCCCGcGCCc -3'
miRNA:   3'- aaCCaaCAGCGGUG-UGC-GGGGCaCGG- -5'
5501 3' -58.9 NC_001798.1 + 122514 0.76 0.245843
Target:  5'- -aGGgaccccUG-CGCCACccGCGCCCCGUGCUg -3'
miRNA:   3'- aaCCa-----ACaGCGGUG--UGCGGGGCACGG- -5'
5501 3' -58.9 NC_001798.1 + 30196 0.76 0.276456
Target:  5'- -cGGggGUccCGCCuCACGCCCCGcGCCc -3'
miRNA:   3'- aaCCaaCA--GCGGuGUGCGGGGCaCGG- -5'
5501 3' -58.9 NC_001798.1 + 62567 0.75 0.316403
Target:  5'- -cGGacGUCGCCGCcacgucauccacgACGCCCCGgagGCCc -3'
miRNA:   3'- aaCCaaCAGCGGUG-------------UGCGGGGCa--CGG- -5'
5501 3' -58.9 NC_001798.1 + 31571 0.74 0.331636
Target:  5'- -gGGgcG-CGCCGCGCGCCCCcgcgcgGCCg -3'
miRNA:   3'- aaCCaaCaGCGGUGUGCGGGGca----CGG- -5'
5501 3' -58.9 NC_001798.1 + 3368 0.74 0.342087
Target:  5'- -cGGUUggcGUCGCCGCcgucgucggggguucGCGCCCCGgucagcGCCg -3'
miRNA:   3'- aaCCAA---CAGCGGUG---------------UGCGGGGCa-----CGG- -5'
5501 3' -58.9 NC_001798.1 + 48972 0.73 0.402881
Target:  5'- -gGGUU-UCGCCAC-CGCCCCccagGCCa -3'
miRNA:   3'- aaCCAAcAGCGGUGuGCGGGGca--CGG- -5'
5501 3' -58.9 NC_001798.1 + 24391 0.71 0.511509
Target:  5'- -----cGcCGCCGC-CGCCCCGUuGCCg -3'
miRNA:   3'- aaccaaCaGCGGUGuGCGGGGCA-CGG- -5'
5501 3' -58.9 NC_001798.1 + 92338 0.7 0.521137
Target:  5'- -cGGacGUCGCCGuCGCGCCCCucaucgucgGCCu -3'
miRNA:   3'- aaCCaaCAGCGGU-GUGCGGGGca-------CGG- -5'
5501 3' -58.9 NC_001798.1 + 81699 0.7 0.521137
Target:  5'- -cGGcucUGcCGCCGCuuucucCGCCgCCGUGCCg -3'
miRNA:   3'- aaCCa--ACaGCGGUGu-----GCGG-GGCACGG- -5'
5501 3' -58.9 NC_001798.1 + 12393 0.7 0.530835
Target:  5'- -cGGUgcgCGCCcCACGCuCCCG-GCCu -3'
miRNA:   3'- aaCCAacaGCGGuGUGCG-GGGCaCGG- -5'
5501 3' -58.9 NC_001798.1 + 143874 0.7 0.570222
Target:  5'- cUUGGagUGggaCGCCGC-CGCCCCGcGCUu -3'
miRNA:   3'- -AACCa-ACa--GCGGUGuGCGGGGCaCGG- -5'
5501 3' -58.9 NC_001798.1 + 145464 0.69 0.580189
Target:  5'- -cGGc---CGCCGCGCGCCCCcgcccgGCCg -3'
miRNA:   3'- aaCCaacaGCGGUGUGCGGGGca----CGG- -5'
5501 3' -58.9 NC_001798.1 + 145422 0.69 0.580189
Target:  5'- -cGGc---CGCCGCGCGCCCCcgcccgGCCg -3'
miRNA:   3'- aaCCaacaGCGGUGUGCGGGGca----CGG- -5'
5501 3' -58.9 NC_001798.1 + 145506 0.69 0.580189
Target:  5'- -cGGc---CGCCGCGCGCCCCcgcccgGCCg -3'
miRNA:   3'- aaCCaacaGCGGUGUGCGGGGca----CGG- -5'
5501 3' -58.9 NC_001798.1 + 69203 0.69 0.589191
Target:  5'- -cGGUgggGU-GCCGCagggccaaaaggaGCGCCCCG-GCCg -3'
miRNA:   3'- aaCCAa--CAgCGGUG-------------UGCGGGGCaCGG- -5'
5501 3' -58.9 NC_001798.1 + 134949 0.69 0.590193
Target:  5'- cUGGUgcgGggCGCCGCggccacccAUGCCgCGUGCCu -3'
miRNA:   3'- aACCAa--Ca-GCGGUG--------UGCGGgGCACGG- -5'
5501 3' -58.9 NC_001798.1 + 25087 0.69 0.600226
Target:  5'- -aGGg---CGCCGCcgggcgGCGCCCCGcGCCc -3'
miRNA:   3'- aaCCaacaGCGGUG------UGCGGGGCaCGG- -5'
5501 3' -58.9 NC_001798.1 + 103452 0.69 0.609275
Target:  5'- -aGGggGUUcuccggaggcaggGCCGCACGCaCCGUGUCu -3'
miRNA:   3'- aaCCaaCAG-------------CGGUGUGCGgGGCACGG- -5'
5501 3' -58.9 NC_001798.1 + 23280 0.69 0.610281
Target:  5'- aUGGccagccUGUCGCCGCgacccccgGCGCCCC--GCCg -3'
miRNA:   3'- aACCa-----ACAGCGGUG--------UGCGGGGcaCGG- -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.