miRNA display CGI


Results 1 - 20 of 34 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
25030 3' -54.3 NC_005336.1 + 124039 0.66 0.940494
Target:  5'- cGACugUCGCgUCGCgcggcCGCggCGCUCGCUCa -3'
miRNA:   3'- -UUG--AGUG-AGCGa----GCGa-GUGAGUGAGc -5'
25030 3' -54.3 NC_005336.1 + 9427 0.66 0.940494
Target:  5'- gAGCgCGCUCggGCUCGC-CGagaacCUCGCUCGg -3'
miRNA:   3'- -UUGaGUGAG--CGAGCGaGU-----GAGUGAGC- -5'
25030 3' -54.3 NC_005336.1 + 10193 0.66 0.940494
Target:  5'- uGCaUCACUCGCUCGgUgACguuCUCGu -3'
miRNA:   3'- uUG-AGUGAGCGAGCgAgUGaguGAGC- -5'
25030 3' -54.3 NC_005336.1 + 137045 0.66 0.935579
Target:  5'- uAACUCACUCaCUCuCUCACUCGg--- -3'
miRNA:   3'- -UUGAGUGAGcGAGcGAGUGAGUgagc -5'
25030 3' -54.3 NC_005336.1 + 137045 0.66 0.935579
Target:  5'- uAACUCACUCaCUCuCUCACUCGg--- -3'
miRNA:   3'- -UUGAGUGAGcGAGcGAGUGAGUgagc -5'
25030 3' -54.3 NC_005336.1 + 122553 0.66 0.930414
Target:  5'- cGCgcgCGCUCGCcagcCGCgCGCUCgACUCGu -3'
miRNA:   3'- uUGa--GUGAGCGa---GCGaGUGAG-UGAGC- -5'
25030 3' -54.3 NC_005336.1 + 47301 0.67 0.913412
Target:  5'- -cCUC-CUCGCucUCGCUCucaUCGCUCu -3'
miRNA:   3'- uuGAGuGAGCG--AGCGAGug-AGUGAGc -5'
25030 3' -54.3 NC_005336.1 + 43479 0.67 0.912806
Target:  5'- -cCUCACUgGCcgcgguaUCGUgcgCACUCGCUCc -3'
miRNA:   3'- uuGAGUGAgCG-------AGCGa--GUGAGUGAGc -5'
25030 3' -54.3 NC_005336.1 + 117723 0.67 0.907244
Target:  5'- aGACUCACgaaguaGCUcCGC-CACUC-CUCGu -3'
miRNA:   3'- -UUGAGUGag----CGA-GCGaGUGAGuGAGC- -5'
25030 3' -54.3 NC_005336.1 + 106341 0.67 0.885861
Target:  5'- gGGCUCAUcucgCGCUCGCggcugCACgacuaccucaugCGCUCGa -3'
miRNA:   3'- -UUGAGUGa---GCGAGCGa----GUGa-----------GUGAGC- -5'
25030 3' -54.3 NC_005336.1 + 136850 0.67 0.884443
Target:  5'- cACUCACUCggaguaagcgaguGCgaacaggucaacagUCGaCUCACUCACUCu -3'
miRNA:   3'- uUGAGUGAG-------------CG--------------AGC-GAGUGAGUGAGc -5'
25030 3' -54.3 NC_005336.1 + 136850 0.67 0.884443
Target:  5'- cACUCACUCggaguaagcgaguGCgaacaggucaacagUCGaCUCACUCACUCu -3'
miRNA:   3'- uUGAGUGAG-------------CG--------------AGC-GAGUGAGUGAGc -5'
25030 3' -54.3 NC_005336.1 + 130441 0.67 0.880133
Target:  5'- cGCUCACgCGCgggcUGCUCGCgaucgCGCUCu -3'
miRNA:   3'- uUGAGUGaGCGa---GCGAGUGa----GUGAGc -5'
25030 3' -54.3 NC_005336.1 + 11726 0.68 0.872764
Target:  5'- cGCgugCGCUCGCgCGCUCuccgCACUCa -3'
miRNA:   3'- uUGa--GUGAGCGaGCGAGuga-GUGAGc -5'
25030 3' -54.3 NC_005336.1 + 59240 0.69 0.832647
Target:  5'- -uCUCGCcCGCgCGCUUcgcggcguGCUCGCUCGa -3'
miRNA:   3'- uuGAGUGaGCGaGCGAG--------UGAGUGAGC- -5'
25030 3' -54.3 NC_005336.1 + 137651 0.69 0.824019
Target:  5'- uAAC-CACUCGCgCaCUC-CUCACUCGg -3'
miRNA:   3'- -UUGaGUGAGCGaGcGAGuGAGUGAGC- -5'
25030 3' -54.3 NC_005336.1 + 137651 0.69 0.824019
Target:  5'- uAAC-CACUCGCgCaCUC-CUCACUCGg -3'
miRNA:   3'- -UUGaGUGAGCGaGcGAGuGAGUGAGC- -5'
25030 3' -54.3 NC_005336.1 + 138114 0.71 0.69852
Target:  5'- cACUCACUCGCUCGCUCGg------- -3'
miRNA:   3'- uUGAGUGAGCGAGCGAGUgagugagc -5'
25030 3' -54.3 NC_005336.1 + 138114 0.71 0.69852
Target:  5'- cACUCACUCGCUCGCUCGg------- -3'
miRNA:   3'- uUGAGUGAGCGAGCGAGUgagugagc -5'
25030 3' -54.3 NC_005336.1 + 46849 0.72 0.646426
Target:  5'- uGAC-CACgCGCUUGUUCAgCUCGCUCGc -3'
miRNA:   3'- -UUGaGUGaGCGAGCGAGU-GAGUGAGC- -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.