miRNA display CGI


Results 1 - 20 of 24 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
23185 3' -56.9 NC_005259.1 + 35636 0.66 0.682819
Target:  5'- cGGGCC--GCCG-CcgCUGCCGcuGGCGa -3'
miRNA:   3'- aCCUGGaaCGGCuGaaGACGGC--UCGC- -5'
23185 3' -56.9 NC_005259.1 + 4741 0.66 0.682819
Target:  5'- aGGACCggcucagGCCGGuCccUCggGCCGGGCu -3'
miRNA:   3'- aCCUGGaa-----CGGCU-Ga-AGa-CGGCUCGc -5'
23185 3' -56.9 NC_005259.1 + 45115 0.66 0.650718
Target:  5'- cGGGCCgagaguggUGCCGACgaggucggcaaUCUGCUGAucGCu -3'
miRNA:   3'- aCCUGGa-------ACGGCUGa----------AGACGGCU--CGc -5'
23185 3' -56.9 NC_005259.1 + 49991 0.67 0.639973
Target:  5'- cGGAUCgcgUGCgGACggCUGCCcucgugcacGGGCGc -3'
miRNA:   3'- aCCUGGa--ACGgCUGaaGACGG---------CUCGC- -5'
23185 3' -56.9 NC_005259.1 + 3072 0.67 0.639973
Target:  5'- cGGGCCgagGCCGACaagagaGCCGcgcAGCGa -3'
miRNA:   3'- aCCUGGaa-CGGCUGaaga--CGGC---UCGC- -5'
23185 3' -56.9 NC_005259.1 + 17505 0.67 0.639973
Target:  5'- gGcGACCUUGCCGAU-----CCGAGCu -3'
miRNA:   3'- aC-CUGGAACGGCUGaagacGGCUCGc -5'
23185 3' -56.9 NC_005259.1 + 39052 0.67 0.62922
Target:  5'- gGGAUgUUGgCGAUgu-UGCCGAGCu -3'
miRNA:   3'- aCCUGgAACgGCUGaagACGGCUCGc -5'
23185 3' -56.9 NC_005259.1 + 7856 0.67 0.62922
Target:  5'- cGGACCgcGCCGACccCggugGCCcGAGUGc -3'
miRNA:   3'- aCCUGGaaCGGCUGaaGa---CGG-CUCGC- -5'
23185 3' -56.9 NC_005259.1 + 58571 0.67 0.61847
Target:  5'- uUGGGCCggauCgCGGCgcggCUGCCGGGCc -3'
miRNA:   3'- -ACCUGGaac-G-GCUGaa--GACGGCUCGc -5'
23185 3' -56.9 NC_005259.1 + 54728 0.67 0.607731
Target:  5'- aGGACauaGCCGAgg-CUGCCGAcaGCGa -3'
miRNA:   3'- aCCUGgaaCGGCUgaaGACGGCU--CGC- -5'
23185 3' -56.9 NC_005259.1 + 13224 0.67 0.592732
Target:  5'- gUGGGCCUcGaCCGGCcaccgugaggGCCGAGCa -3'
miRNA:   3'- -ACCUGGAaC-GGCUGaaga------CGGCUCGc -5'
23185 3' -56.9 NC_005259.1 + 8306 0.68 0.585255
Target:  5'- cGGaaacgccGCCUUGUCGGag-CUGCCGAcgGCGa -3'
miRNA:   3'- aCC-------UGGAACGGCUgaaGACGGCU--CGC- -5'
23185 3' -56.9 NC_005259.1 + 26620 0.68 0.565059
Target:  5'- cGGACCgguaGCCGAUaUCgaugGCCuGGCGu -3'
miRNA:   3'- aCCUGGaa--CGGCUGaAGa---CGGcUCGC- -5'
23185 3' -56.9 NC_005259.1 + 43839 0.68 0.554502
Target:  5'- aGGGCC--GCCG-CUcgccaUGCCGAGCGc -3'
miRNA:   3'- aCCUGGaaCGGCuGAag---ACGGCUCGC- -5'
23185 3' -56.9 NC_005259.1 + 45955 0.69 0.49262
Target:  5'- aGcACgUUGCCGACgu-UGCCGAGCu -3'
miRNA:   3'- aCcUGgAACGGCUGaagACGGCUCGc -5'
23185 3' -56.9 NC_005259.1 + 60258 0.7 0.443583
Target:  5'- gGGugCaagGCUGGCcaccagcgCUGCCGGGCGg -3'
miRNA:   3'- aCCugGaa-CGGCUGaa------GACGGCUCGC- -5'
23185 3' -56.9 NC_005259.1 + 23471 0.71 0.41643
Target:  5'- gGGGCCUcggcauugucggUGCCGACgccaugaccaagGCCGAGCu -3'
miRNA:   3'- aCCUGGA------------ACGGCUGaaga--------CGGCUCGc -5'
23185 3' -56.9 NC_005259.1 + 68851 0.71 0.415512
Target:  5'- gUGGGCCaucaUGUCGACUUgCccgcGCCGGGCGc -3'
miRNA:   3'- -ACCUGGa---ACGGCUGAA-Ga---CGGCUCGC- -5'
23185 3' -56.9 NC_005259.1 + 64428 0.71 0.397413
Target:  5'- gGGAUC--GCCGACgagCUGCCGGGgCGc -3'
miRNA:   3'- aCCUGGaaCGGCUGaa-GACGGCUC-GC- -5'
23185 3' -56.9 NC_005259.1 + 27817 0.72 0.346258
Target:  5'- cGaGACCUgGCuCGACUUCUGCgCGAGg- -3'
miRNA:   3'- aC-CUGGAaCG-GCUGAAGACG-GCUCgc -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.