miRNA display CGI


Results 1 - 17 of 17 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
28548 5' -59.9 NC_005946.1 + 48020 0.66 0.667238
Target:  5'- -gGCGGCCUCCUUgGCgaCaGUCUUGUc -3'
miRNA:   3'- ugUGCCGGGGGGAgUGg-GaCAGAACG- -5'
28548 5' -59.9 NC_005946.1 + 56083 0.66 0.661122
Target:  5'- cCAUGGCCCUCaggCUCuccagggugagggugGCCCUGUCUa-- -3'
miRNA:   3'- uGUGCCGGGGG---GAG---------------UGGGACAGAacg -5'
28548 5' -59.9 NC_005946.1 + 18615 0.66 0.636594
Target:  5'- cCGCuGGCaUCUCCUCGCCC-GUCUUugaGCa -3'
miRNA:   3'- uGUG-CCG-GGGGGAGUGGGaCAGAA---CG- -5'
28548 5' -59.9 NC_005946.1 + 34384 0.66 0.626361
Target:  5'- -gAgGGCCCCCuCUCGCCCacgGUUcgGg -3'
miRNA:   3'- ugUgCCGGGGG-GAGUGGGa--CAGaaCg -5'
28548 5' -59.9 NC_005946.1 + 982 0.66 0.616133
Target:  5'- --gUGGCCCUgCCUCAUCCUGUga-GCa -3'
miRNA:   3'- uguGCCGGGG-GGAGUGGGACAgaaCG- -5'
28548 5' -59.9 NC_005946.1 + 47797 0.66 0.616133
Target:  5'- uACACuGUCCCCUUUaucuuguggGCCCUGUUgaGCu -3'
miRNA:   3'- -UGUGcCGGGGGGAG---------UGGGACAGaaCG- -5'
28548 5' -59.9 NC_005946.1 + 83437 0.67 0.605917
Target:  5'- uGCACGGCCaucaCCCUgGcgugucucCCCUG-CUgcUGCa -3'
miRNA:   3'- -UGUGCCGGg---GGGAgU--------GGGACaGA--ACG- -5'
28548 5' -59.9 NC_005946.1 + 12921 0.67 0.59572
Target:  5'- aGCcCGGUCCCCUgccCGCUUUGUUggGCg -3'
miRNA:   3'- -UGuGCCGGGGGGa--GUGGGACAGaaCG- -5'
28548 5' -59.9 NC_005946.1 + 63752 0.67 0.58555
Target:  5'- cCACGaCCCUCCUC-CCCUGgag-GCg -3'
miRNA:   3'- uGUGCcGGGGGGAGuGGGACagaaCG- -5'
28548 5' -59.9 NC_005946.1 + 47083 0.67 0.58555
Target:  5'- uGCACGGCCgccgcaaaCCCCaUCAugcCCCUGUg--GCg -3'
miRNA:   3'- -UGUGCCGG--------GGGG-AGU---GGGACAgaaCG- -5'
28548 5' -59.9 NC_005946.1 + 67617 0.67 0.565318
Target:  5'- uGCACGGCUCCCUUC-CCCaGcCUg-- -3'
miRNA:   3'- -UGUGCCGGGGGGAGuGGGaCaGAacg -5'
28548 5' -59.9 NC_005946.1 + 49103 0.68 0.535335
Target:  5'- aACACccuGGCCUUCCcCGCCCUGUCc--- -3'
miRNA:   3'- -UGUG---CCGGGGGGaGUGGGACAGaacg -5'
28548 5' -59.9 NC_005946.1 + 44021 0.68 0.525462
Target:  5'- -gGCGGCguaggaUCCCCUCcugACCUUGcCUUGCc -3'
miRNA:   3'- ugUGCCG------GGGGGAG---UGGGACaGAACG- -5'
28548 5' -59.9 NC_005946.1 + 91824 0.68 0.514682
Target:  5'- -aACGGUuuacccgCCCCCUCugggugccCCCUGUCU-GCu -3'
miRNA:   3'- ugUGCCG-------GGGGGAGu-------GGGACAGAaCG- -5'
28548 5' -59.9 NC_005946.1 + 26799 0.7 0.431303
Target:  5'- cCAUGGCCUCCCUgugCCUGUCUgagGUa -3'
miRNA:   3'- uGUGCCGGGGGGAgugGGACAGAa--CG- -5'
28548 5' -59.9 NC_005946.1 + 59965 0.7 0.431303
Target:  5'- uACGCGGCCCUgggUCUCGCCCccGgaucuccCUUGCc -3'
miRNA:   3'- -UGUGCCGGGG---GGAGUGGGa-Ca------GAACG- -5'
28548 5' -59.9 NC_005946.1 + 34101 0.7 0.412796
Target:  5'- uACAgGGCCguagcccugaagcUCCCUgGCCCUGUCUUc- -3'
miRNA:   3'- -UGUgCCGG-------------GGGGAgUGGGACAGAAcg -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.