miRNA display CGI


Results 1 - 20 of 53 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
3799 3' -58.8 NC_001650.1 + 184153 0.67 0.790236
Target:  5'- cGGGGGGGUuuguggggcuGCCUggG--AUGAGGGGu -3'
miRNA:   3'- -UCCCCCCG----------CGGAaaCagUACUCCCUg -5'
3799 3' -58.8 NC_001650.1 + 31303 0.68 0.724018
Target:  5'- -cGGGGGCGCU----UCAUGcgaccccAGGGACg -3'
miRNA:   3'- ucCCCCCGCGGaaacAGUAC-------UCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 22587 0.68 0.734605
Target:  5'- gGGGcGGcGGCGCCUcgGUCuuuAUGuuGGGCg -3'
miRNA:   3'- -UCC-CC-CCGCGGAaaCAG---UACucCCUG- -5'
3799 3' -58.8 NC_001650.1 + 68830 0.67 0.74414
Target:  5'- gGGGcGGGGCGCCUcg-----GAcGGGACg -3'
miRNA:   3'- -UCC-CCCCGCGGAaacaguaCU-CCCUG- -5'
3799 3' -58.8 NC_001650.1 + 91034 0.67 0.74414
Target:  5'- cAGGGGGGUGaCC---GUCuUG-GGGGCg -3'
miRNA:   3'- -UCCCCCCGC-GGaaaCAGuACuCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 35172 0.67 0.76292
Target:  5'- cGGGGGuGGUGCCccacaccagcacccUGgacccggugugcuUCGUGGGGGACa -3'
miRNA:   3'- -UCCCC-CCGCGGaa------------AC-------------AGUACUCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 127569 0.67 0.76292
Target:  5'- gAGGGGGGCGaCCgcccaggGcCAggGGGuGGACu -3'
miRNA:   3'- -UCCCCCCGC-GGaaa----CaGUa-CUC-CCUG- -5'
3799 3' -58.8 NC_001650.1 + 38459 0.67 0.772147
Target:  5'- gGGaGGGGGCGCCU-----GUGAG-GACa -3'
miRNA:   3'- -UC-CCCCCGCGGAaacagUACUCcCUG- -5'
3799 3' -58.8 NC_001650.1 + 17446 0.67 0.790236
Target:  5'- cGGGGGGGUuuguggggcuGCCUggG--AUGAGGGGu -3'
miRNA:   3'- -UCCCCCCG----------CGGAaaCagUACUCCCUg -5'
3799 3' -58.8 NC_001650.1 + 21753 0.68 0.724018
Target:  5'- aGGGGGcagcaacagcugcGGCGCCccc-UgGUGGGGGACg -3'
miRNA:   3'- -UCCCC-------------CCGCGGaaacAgUACUCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 106848 0.69 0.675909
Target:  5'- aGGGGuGGGCGCUgggGUCGggcccgGGGuGGAUg -3'
miRNA:   3'- -UCCC-CCCGCGGaaaCAGUa-----CUC-CCUG- -5'
3799 3' -58.8 NC_001650.1 + 106961 0.69 0.635978
Target:  5'- uGGGGGGCGCg---GUCAccacgGAGGcGAUg -3'
miRNA:   3'- uCCCCCCGCGgaaaCAGUa----CUCC-CUG- -5'
3799 3' -58.8 NC_001650.1 + 59694 0.75 0.322891
Target:  5'- aGGGGGuGGUGgaggugGUCAUGAGGGACa -3'
miRNA:   3'- -UCCCC-CCGCggaaa-CAGUACUCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 121085 0.74 0.376078
Target:  5'- cGGGGGGCGCCc--GUCcUGGgguuccGGGACg -3'
miRNA:   3'- uCCCCCCGCGGaaaCAGuACU------CCCUG- -5'
3799 3' -58.8 NC_001650.1 + 127501 0.73 0.443697
Target:  5'- gAGGGGGGCGCCgg-GgacgaaGAGGGGu -3'
miRNA:   3'- -UCCCCCCGCGGaaaCagua--CUCCCUg -5'
3799 3' -58.8 NC_001650.1 + 21685 0.71 0.546634
Target:  5'- cGGGGGGGC-CCUgcacccUGUCc--AGGGACg -3'
miRNA:   3'- -UCCCCCCGcGGAa-----ACAGuacUCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 29056 0.7 0.605972
Target:  5'- cGGGGGGUgGCCga---CGUGGGGGAg -3'
miRNA:   3'- uCCCCCCG-CGGaaacaGUACUCCCUg -5'
3799 3' -58.8 NC_001650.1 + 128750 0.7 0.605972
Target:  5'- gAGGGGGGCGCCg-UGUCca---GGACc -3'
miRNA:   3'- -UCCCCCCGCGGaaACAGuacucCCUG- -5'
3799 3' -58.8 NC_001650.1 + 48062 0.7 0.615965
Target:  5'- uGGGGGGCGCCcugaacgUGggCAUGugcGuGGACa -3'
miRNA:   3'- uCCCCCCGCGGaa-----ACa-GUACu--C-CCUG- -5'
3799 3' -58.8 NC_001650.1 + 156526 0.69 0.625969
Target:  5'- cGGGGGGCGa----GU-GUGAGGGACc -3'
miRNA:   3'- uCCCCCCGCggaaaCAgUACUCCCUG- -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.