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 + 419 0.71 0.618089
Target:  5'- uUCCGCgcccGGGGGGUGa-ACCCCCugGa -3'
miRNA:   3'- -AGGUGaa--CUCCUCGCgcUGGGGGugC- -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 + 154332 0.67 0.829176
Target:  5'- -aCGCagGAGGugggGGCGCGGCCaagaaucagCCCGCGg -3'
miRNA:   3'- agGUGaaCUCC----UCGCGCUGG---------GGGUGC- -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 + 57924 0.68 0.778677
Target:  5'- --aGCUgcgGAGGAGcCGCGcuacguCCCCCGCu -3'
miRNA:   3'- aggUGAa--CUCCUC-GCGCu-----GGGGGUGc -5'
15780 3' -59.1 NC_004065.1 + 60411 0.68 0.760819
Target:  5'- uUCCGac-GAGGuuaAGCGacgugaCGGCCCCCGCGa -3'
miRNA:   3'- -AGGUgaaCUCC---UCGC------GCUGGGGGUGC- -5'
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 + 80302 0.66 0.866894
Target:  5'- aCCGCUaUGAGuccGAGggccggcgcggcCGCGGCCCCC-CGg -3'
miRNA:   3'- aGGUGA-ACUC---CUC------------GCGCUGGGGGuGC- -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 + 197157 0.68 0.796063
Target:  5'- ------cGAGGAGCGCGACCUguCCAUc -3'
miRNA:   3'- aggugaaCUCCUCGCGCUGGG--GGUGc -5'
15780 3' -59.1 NC_004065.1 + 187311 0.71 0.627803
Target:  5'- aUCACUggggcgGAGGAGCGCucgccGACCUCUGCa -3'
miRNA:   3'- aGGUGAa-----CUCCUCGCG-----CUGGGGGUGc -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 + 173975 0.7 0.656934
Target:  5'- gUCCACgaccuGGGGCGCGAaCCCUC-CGa -3'
miRNA:   3'- -AGGUGaacu-CCUCGCGCU-GGGGGuGC- -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 + 176159 0.66 0.880687
Target:  5'- gCCAacgGAGuGgccaucccGGCGCGACCgCCGCGa -3'
miRNA:   3'- aGGUgaaCUC-C--------UCGCGCUGGgGGUGC- -5'
15780 3' -59.1 NC_004065.1 + 121294 0.7 0.666618
Target:  5'- cCCGCgUGAGGGcgacGCGCG-CCCCCuucugGCGa -3'
miRNA:   3'- aGGUGaACUCCU----CGCGCuGGGGG-----UGC- -5'
15780 3' -59.1 NC_004065.1 + 133872 1.1 0.00227
Target:  5'- aUCCACUUGAGGAGCGCGACCCCCACGg -3'
miRNA:   3'- -AGGUGAACUCCUCGCGCUGGGGGUGC- -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 + 224593 0.67 0.842491
Target:  5'- aUCGCcgucGGGGAGUuguucccaacgcacGCGGCCCuCCACGg -3'
miRNA:   3'- aGGUGaa--CUCCUCG--------------CGCUGGG-GGUGC- -5'
15780 3' -59.1 NC_004065.1 + 24632 0.67 0.826776
Target:  5'- gCCAgUUGAGGAgGCGCGAUCugguguucuggcgaCCCuCGa -3'
miRNA:   3'- aGGUgAACUCCU-CGCGCUGG--------------GGGuGC- -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.