miRNA display CGI


Results 1 - 20 of 39 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
19874 3' -54.1 NC_004687.1 + 101628 0.71 0.754968
Target:  5'- uGCUgCAGC---GGCAGGAUGCCCaucgaggUCCa -3'
miRNA:   3'- -UGA-GUCGuuuCUGUCCUACGGGg------AGG- -5'
19874 3' -54.1 NC_004687.1 + 57047 0.66 0.951346
Target:  5'- uUUCAGgAuccGGCGGGAUGgaCCUUCCa -3'
miRNA:   3'- uGAGUCgUuu-CUGUCCUACg-GGGAGG- -5'
19874 3' -54.1 NC_004687.1 + 119901 0.66 0.947057
Target:  5'- cGCUCGGCuuGGugGuGGAUGuaucacguCCCCaCCg -3'
miRNA:   3'- -UGAGUCGuuUCugU-CCUAC--------GGGGaGG- -5'
19874 3' -54.1 NC_004687.1 + 23315 0.67 0.916174
Target:  5'- cGCUCAGgaGGAGcGCAGGGagGCCCUgcgggCCa -3'
miRNA:   3'- -UGAGUCg-UUUC-UGUCCUa-CGGGGa----GG- -5'
19874 3' -54.1 NC_004687.1 + 88376 0.68 0.897402
Target:  5'- aACUaccuGGCGGAGAaGGGuAUGCUCUUCCu -3'
miRNA:   3'- -UGAg---UCGUUUCUgUCC-UACGGGGAGG- -5'
19874 3' -54.1 NC_004687.1 + 106117 0.68 0.890662
Target:  5'- aGCgucCGGCcAAGaACAGGGagaGCCUCUCCg -3'
miRNA:   3'- -UGa--GUCGuUUC-UGUCCUa--CGGGGAGG- -5'
19874 3' -54.1 NC_004687.1 + 138987 0.68 0.890662
Target:  5'- gGCggCAGCGGAGGCccGGGUGCCggagCgUCCg -3'
miRNA:   3'- -UGa-GUCGUUUCUGu-CCUACGG----GgAGG- -5'
19874 3' -54.1 NC_004687.1 + 125137 0.68 0.890662
Target:  5'- uGCagGGCGAGGAgccGGUGcCCCCUCCu -3'
miRNA:   3'- -UGagUCGUUUCUgucCUAC-GGGGAGG- -5'
19874 3' -54.1 NC_004687.1 + 84498 0.68 0.883686
Target:  5'- uGCUgGGUuuGGACAGGGUGCaCCaCUg- -3'
miRNA:   3'- -UGAgUCGuuUCUGUCCUACG-GG-GAgg -5'
19874 3' -54.1 NC_004687.1 + 50654 0.69 0.837164
Target:  5'- cAC-CGGCGAAG-CGGGcaccGUGCCCUUCg -3'
miRNA:   3'- -UGaGUCGUUUCuGUCC----UACGGGGAGg -5'
19874 3' -54.1 NC_004687.1 + 55963 0.7 0.783719
Target:  5'- cCUCAGCcAGGugGGGuacgugGUGCCCgaCCa -3'
miRNA:   3'- uGAGUCGuUUCugUCC------UACGGGgaGG- -5'
19874 3' -54.1 NC_004687.1 + 153751 0.7 0.783719
Target:  5'- gGCUCuGC--GGugGGGA--CCCCUCCa -3'
miRNA:   3'- -UGAGuCGuuUCugUCCUacGGGGAGG- -5'
19874 3' -54.1 NC_004687.1 + 44851 0.67 0.916174
Target:  5'- gGC-CAGCucgccGGGCcGGAUGCCCCg-- -3'
miRNA:   3'- -UGaGUCGuu---UCUGuCCUACGGGGagg -5'
19874 3' -54.1 NC_004687.1 + 55291 0.67 0.927458
Target:  5'- uCUCAGCuauAGGCccguGGUGCCCCUg- -3'
miRNA:   3'- uGAGUCGuu-UCUGuc--CUACGGGGAgg -5'
19874 3' -54.1 NC_004687.1 + 138839 0.67 0.927458
Target:  5'- cCUCAGCAcuGACGcGGuagGCCUC-CCa -3'
miRNA:   3'- uGAGUCGUuuCUGU-CCua-CGGGGaGG- -5'
19874 3' -54.1 NC_004687.1 + 9342 0.66 0.942527
Target:  5'- gACgCAGCAGgcuguccgggccGGACAGGAUGUUggugCCUCg -3'
miRNA:   3'- -UGaGUCGUU------------UCUGUCCUACGG----GGAGg -5'
19874 3' -54.1 NC_004687.1 + 129863 0.66 0.942527
Target:  5'- uCUcCAGUGAAGGCgaAGGA-GCCCCggaaCCg -3'
miRNA:   3'- uGA-GUCGUUUCUG--UCCUaCGGGGa---GG- -5'
19874 3' -54.1 NC_004687.1 + 121034 0.66 0.946615
Target:  5'- cCUCGGCGAuGAgcugcucCAGGGUGCCCg--- -3'
miRNA:   3'- uGAGUCGUUuCU-------GUCCUACGGGgagg -5'
19874 3' -54.1 NC_004687.1 + 8173 0.66 0.947057
Target:  5'- gGCUCGGCcacGGugGcGGAaGCCUCUUCc -3'
miRNA:   3'- -UGAGUCGuu-UCugU-CCUaCGGGGAGG- -5'
19874 3' -54.1 NC_004687.1 + 49763 1.12 0.002388
Target:  5'- aACUCAGCAAAGACAGGAUGCCCCUCCg -3'
miRNA:   3'- -UGAGUCGUUUCUGUCCUACGGGGAGG- -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.