miRNA display CGI


Results 1 - 20 of 37 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
15780 3' -59.1 NC_004065.1 + 99291 0.66 0.887286
Target:  5'- cCCACgacGAGGGGCacauaGGCCCCgAUGu -3'
miRNA:   3'- aGGUGaa-CUCCUCGcg---CUGGGGgUGC- -5'
15780 3' -59.1 NC_004065.1 + 226873 0.66 0.887286
Target:  5'- gCCACUUGAGGuAGaaacuUGGCCCgggaCCGCGg -3'
miRNA:   3'- aGGUGAACUCC-UCgc---GCUGGG----GGUGC- -5'
15780 3' -59.1 NC_004065.1 + 120174 0.66 0.880687
Target:  5'- gCCACcugggUGAGGGGaGCGACgCCgCGCu -3'
miRNA:   3'- aGGUGa----ACUCCUCgCGCUG-GGgGUGc -5'
15780 3' -59.1 NC_004065.1 + 176159 0.66 0.880687
Target:  5'- gCCAacgGAGuGgccaucccGGCGCGACCgCCGCGa -3'
miRNA:   3'- aGGUgaaCUC-C--------UCGCGCUGGgGGUGC- -5'
15780 3' -59.1 NC_004065.1 + 60755 0.66 0.878668
Target:  5'- --gACUUGAGGucgaggccgcacagGGcCGCGGCCuCCCGCc -3'
miRNA:   3'- aggUGAACUCC--------------UC-GCGCUGG-GGGUGc -5'
15780 3' -59.1 NC_004065.1 + 78532 0.66 0.873888
Target:  5'- aCCGC-UGAGGAGCccguccGCGugCCgCUGCu -3'
miRNA:   3'- aGGUGaACUCCUCG------CGCugGG-GGUGc -5'
15780 3' -59.1 NC_004065.1 + 90297 0.66 0.873888
Target:  5'- aUCUGCUUGGGGAuGCcCGGCagCCGCGu -3'
miRNA:   3'- -AGGUGAACUCCU-CGcGCUGggGGUGC- -5'
15780 3' -59.1 NC_004065.1 + 159713 0.66 0.873197
Target:  5'- uUCCugUacgcggccgugUGGGGGGUGCugcugaaGGCCgCCGCGg -3'
miRNA:   3'- -AGGugA-----------ACUCCUCGCG-------CUGGgGGUGC- -5'
15780 3' -59.1 NC_004065.1 + 31821 0.66 0.866894
Target:  5'- cCCGUggGgaaaGGGAGCGCGACCUCUAUu -3'
miRNA:   3'- aGGUGaaC----UCCUCGCGCUGGGGGUGc -5'
15780 3' -59.1 NC_004065.1 + 80302 0.66 0.866894
Target:  5'- aCCGCUaUGAGuccGAGggccggcgcggcCGCGGCCCCC-CGg -3'
miRNA:   3'- aGGUGA-ACUC---CUC------------GCGCUGGGGGuGC- -5'
15780 3' -59.1 NC_004065.1 + 61974 0.66 0.866184
Target:  5'- gCCGCaaccAGGAGCagcaccaGCaGCCCCCGCGa -3'
miRNA:   3'- aGGUGaac-UCCUCG-------CGcUGGGGGUGC- -5'
15780 3' -59.1 NC_004065.1 + 56125 0.67 0.85234
Target:  5'- aUCUACcgagugUUGAGGcGGCgGCGGCCCacacaCACGg -3'
miRNA:   3'- -AGGUG------AACUCC-UCG-CGCUGGGg----GUGC- -5'
15780 3' -59.1 NC_004065.1 + 79777 0.67 0.85234
Target:  5'- cCCACgauccucgagGAGGAGCGgcUGAUCCUgACGa -3'
miRNA:   3'- aGGUGaa--------CUCCUCGC--GCUGGGGgUGC- -5'
15780 3' -59.1 NC_004065.1 + 224593 0.67 0.842491
Target:  5'- aUCGCcgucGGGGAGUuguucccaacgcacGCGGCCCuCCACGg -3'
miRNA:   3'- aGGUGaa--CUCCUCG--------------CGCUGGG-GGUGC- -5'
15780 3' -59.1 NC_004065.1 + 153306 0.67 0.829176
Target:  5'- cCCGCc-GAGGAGUGCaACCUCgACGc -3'
miRNA:   3'- aGGUGaaCUCCUCGCGcUGGGGgUGC- -5'
15780 3' -59.1 NC_004065.1 + 154332 0.67 0.829176
Target:  5'- -aCGCagGAGGugggGGCGCGGCCaagaaucagCCCGCGg -3'
miRNA:   3'- agGUGaaCUCC----UCGCGCUGG---------GGGUGC- -5'
15780 3' -59.1 NC_004065.1 + 24632 0.67 0.826776
Target:  5'- gCCAgUUGAGGAgGCGCGAUCugguguucuggcgaCCCuCGa -3'
miRNA:   3'- aGGUgAACUCCU-CGCGCUGG--------------GGGuGC- -5'
15780 3' -59.1 NC_004065.1 + 108720 0.67 0.812915
Target:  5'- uUUCGCcagaaGGGGGCGCGcgucGCCCUCACGc -3'
miRNA:   3'- -AGGUGaac--UCCUCGCGC----UGGGGGUGC- -5'
15780 3' -59.1 NC_004065.1 + 109635 0.67 0.812915
Target:  5'- aCCACcgucGAGGGcguccuGCGCGACUCCgGCa -3'
miRNA:   3'- aGGUGaa--CUCCU------CGCGCUGGGGgUGc -5'
15780 3' -59.1 NC_004065.1 + 163822 0.67 0.812915
Target:  5'- cUCCACgcagcgGGGGggagcccaAGCGCcagaaGACCCaCCACGa -3'
miRNA:   3'- -AGGUGaa----CUCC--------UCGCG-----CUGGG-GGUGC- -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.