miRNA display CGI


Results 1 - 20 of 33 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
10908 3' -61.4 NC_002794.1 + 922 0.68 0.625854
Target:  5'- cGCCUUCUuuUGGUUUCGGaUUCGCUUUCg -3'
miRNA:   3'- -UGGGAGA--GCCAGAGCCcGAGCGAGGG- -5'
10908 3' -61.4 NC_002794.1 + 4375 0.74 0.339061
Target:  5'- aGCUCUUUCGGUgUCGGuGaCUCGUUCUCu -3'
miRNA:   3'- -UGGGAGAGCCAgAGCC-C-GAGCGAGGG- -5'
10908 3' -61.4 NC_002794.1 + 6949 1.11 0.001026
Target:  5'- cACCCUCUCGGUCUCGGGCUCGCUCCCg -3'
miRNA:   3'- -UGGGAGAGCCAGAGCCCGAGCGAGGG- -5'
10908 3' -61.4 NC_002794.1 + 14504 0.66 0.776646
Target:  5'- gGCCCgcgCUCGcGgcgCUCGuGGCgccgcucggccacggCGCUCUCg -3'
miRNA:   3'- -UGGGa--GAGC-Ca--GAGC-CCGa--------------GCGAGGG- -5'
10908 3' -61.4 NC_002794.1 + 14901 0.71 0.458523
Target:  5'- gACCUUCgcgcUCGaUCgagCGGGCUCGCggUCCCg -3'
miRNA:   3'- -UGGGAG----AGCcAGa--GCCCGAGCG--AGGG- -5'
10908 3' -61.4 NC_002794.1 + 14999 0.69 0.577851
Target:  5'- aGCuCCUCgggCGGUCUCGGcuggcuGCUCGUcgucaccuUCCUg -3'
miRNA:   3'- -UG-GGAGa--GCCAGAGCC------CGAGCG--------AGGG- -5'
10908 3' -61.4 NC_002794.1 + 18315 0.66 0.739804
Target:  5'- gGCCCUCUaCGGUCUCuuguGGUugugcgUCGCgaUCCg -3'
miRNA:   3'- -UGGGAGA-GCCAGAGc---CCG------AGCG--AGGg -5'
10908 3' -61.4 NC_002794.1 + 22359 0.67 0.683512
Target:  5'- cCCCUCUcccgcucacccCGGUCccgauccggUCGGGCgUCGuCUCCg -3'
miRNA:   3'- uGGGAGA-----------GCCAG---------AGCCCG-AGC-GAGGg -5'
10908 3' -61.4 NC_002794.1 + 25307 0.74 0.304587
Target:  5'- cACCCaUCUCGaGUCcgacCGGGCcuaucgCGCUCCCu -3'
miRNA:   3'- -UGGG-AGAGC-CAGa---GCCCGa-----GCGAGGG- -5'
10908 3' -61.4 NC_002794.1 + 46483 0.71 0.441296
Target:  5'- gACgCUCUCGcccgaaCUCGGGCUCGCgcacgCCUg -3'
miRNA:   3'- -UGgGAGAGCca----GAGCCCGAGCGa----GGG- -5'
10908 3' -61.4 NC_002794.1 + 50968 0.66 0.764257
Target:  5'- cACCCUCUCGGcguacgcaaagauaUCuUCGGcGCUcucguaCGCgaUCCCc -3'
miRNA:   3'- -UGGGAGAGCC--------------AG-AGCC-CGA------GCG--AGGG- -5'
10908 3' -61.4 NC_002794.1 + 56510 0.66 0.748939
Target:  5'- gGCCC-CgCGGgcgCUcCGGcGCUCGUUCCg -3'
miRNA:   3'- -UGGGaGaGCCa--GA-GCC-CGAGCGAGGg -5'
10908 3' -61.4 NC_002794.1 + 66375 0.66 0.748939
Target:  5'- cGCCgCUCUC-GUCgaacgCGGGCUcccCGUcgUCCCg -3'
miRNA:   3'- -UGG-GAGAGcCAGa----GCCCGA---GCG--AGGG- -5'
10908 3' -61.4 NC_002794.1 + 68860 0.7 0.529767
Target:  5'- gACCC---CGGagCUCGGGCUCGCcggccucgcccguUCCCa -3'
miRNA:   3'- -UGGGagaGCCa-GAGCCCGAGCG-------------AGGG- -5'
10908 3' -61.4 NC_002794.1 + 70218 0.67 0.673954
Target:  5'- cGCCCggaCGGUCgggCGGGCggccggcCGC-CCCg -3'
miRNA:   3'- -UGGGagaGCCAGa--GCCCGa------GCGaGGG- -5'
10908 3' -61.4 NC_002794.1 + 78459 0.67 0.711929
Target:  5'- cGCUCgcggUCUCGGUCaUCaGGCgcaCGCUCUCc -3'
miRNA:   3'- -UGGG----AGAGCCAG-AGcCCGa--GCGAGGG- -5'
10908 3' -61.4 NC_002794.1 + 82082 0.67 0.721291
Target:  5'- gGCCCUCUCGGgcaccccgacCUCGucuGC-CGCcCCCg -3'
miRNA:   3'- -UGGGAGAGCCa---------GAGCc--CGaGCGaGGG- -5'
10908 3' -61.4 NC_002794.1 + 84185 0.71 0.485912
Target:  5'- gGCCCggcgCUCGGcCcgccucccaccacccCGGGCgCGCUCCCu -3'
miRNA:   3'- -UGGGa---GAGCCaGa--------------GCCCGaGCGAGGG- -5'
10908 3' -61.4 NC_002794.1 + 85028 0.72 0.40798
Target:  5'- gGCCCacgCUCGGgugcCUCGGGCccgCGCUCg- -3'
miRNA:   3'- -UGGGa--GAGCCa---GAGCCCGa--GCGAGgg -5'
10908 3' -61.4 NC_002794.1 + 85517 0.66 0.730585
Target:  5'- cCCCUUUCGGcCUCGccccgcGGCUC-CgCCCa -3'
miRNA:   3'- uGGGAGAGCCaGAGC------CCGAGcGaGGG- -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.