miRNA display CGI


Results 1 - 20 of 60 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
28075 3' -58.5 NC_005887.1 + 18535 0.67 0.42283
Target:  5'- aCACGgGCGuucUCGGUGGGCggcgGCGCc -3'
miRNA:   3'- -GUGCgCGCuguGGCCACUCGa---CGUGu -5'
28075 3' -58.5 NC_005887.1 + 30479 0.68 0.368175
Target:  5'- -gUGCGCGACGCgGcccGUGcGUUGCGCAc -3'
miRNA:   3'- guGCGCGCUGUGgC---CACuCGACGUGU- -5'
28075 3' -58.5 NC_005887.1 + 35334 0.68 0.368175
Target:  5'- gCGCGcCGCGGCgGCCGGccacGAGCUuCACGc -3'
miRNA:   3'- -GUGC-GCGCUG-UGGCCa---CUCGAcGUGU- -5'
28075 3' -58.5 NC_005887.1 + 16531 0.67 0.374297
Target:  5'- -cCGC-CGGCGCCGaGUGGGCgcgucagcaacucgUGCACGa -3'
miRNA:   3'- guGCGcGCUGUGGC-CACUCG--------------ACGUGU- -5'
28075 3' -58.5 NC_005887.1 + 5396 0.67 0.376941
Target:  5'- --aGCGCGACcggugaACCGGcGGGCgGCGCc -3'
miRNA:   3'- gugCGCGCUG------UGGCCaCUCGaCGUGu -5'
28075 3' -58.5 NC_005887.1 + 15695 0.67 0.383161
Target:  5'- -cCGCGCGGCcggaugauuccgccGCCGGcgugaagGAGCUGaCGCGc -3'
miRNA:   3'- guGCGCGCUG--------------UGGCCa------CUCGAC-GUGU- -5'
28075 3' -58.5 NC_005887.1 + 2700 0.67 0.413386
Target:  5'- gUACGgGCGGCAagCGGccGAGCcGCGCGa -3'
miRNA:   3'- -GUGCgCGCUGUg-GCCa-CUCGaCGUGU- -5'
28075 3' -58.5 NC_005887.1 + 12601 0.67 0.413386
Target:  5'- gGC-CGCGACGCuCGGcGuGCUGaCGCAg -3'
miRNA:   3'- gUGcGCGCUGUG-GCCaCuCGAC-GUGU- -5'
28075 3' -58.5 NC_005887.1 + 27540 0.67 0.42188
Target:  5'- uCAUGgGCGGCGCUccaucauGGUGuGCaGCACGc -3'
miRNA:   3'- -GUGCgCGCUGUGG-------CCACuCGaCGUGU- -5'
28075 3' -58.5 NC_005887.1 + 12706 0.68 0.368175
Target:  5'- uCACGCGCGcACGCUGGUcGcGCaGCAgCAg -3'
miRNA:   3'- -GUGCGCGC-UGUGGCCA-CuCGaCGU-GU- -5'
28075 3' -58.5 NC_005887.1 + 41357 0.68 0.359549
Target:  5'- -cCGCGCGcCGCCGG-GAaGCUGUucgaGCAg -3'
miRNA:   3'- guGCGCGCuGUGGCCaCU-CGACG----UGU- -5'
28075 3' -58.5 NC_005887.1 + 13170 0.68 0.359549
Target:  5'- gCGCGCGCaGACAgCGG-GAGCgGUcgaGCAg -3'
miRNA:   3'- -GUGCGCG-CUGUgGCCaCUCGaCG---UGU- -5'
28075 3' -58.5 NC_005887.1 + 17295 0.75 0.109195
Target:  5'- cCGCGCGCGcaaACGCCGGUucggcgcaccgcGuGCUGCACu -3'
miRNA:   3'- -GUGCGCGC---UGUGGCCA------------CuCGACGUGu -5'
28075 3' -58.5 NC_005887.1 + 4621 0.75 0.125697
Target:  5'- uCGC-CGCGGCGCCGGUGGccGCcgGCGCGa -3'
miRNA:   3'- -GUGcGCGCUGUGGCCACU--CGa-CGUGU- -5'
28075 3' -58.5 NC_005887.1 + 16477 0.71 0.22283
Target:  5'- -cCGCGCGGCAggauCCGGcGGGCUGguCGg -3'
miRNA:   3'- guGCGCGCUGU----GGCCaCUCGACguGU- -5'
28075 3' -58.5 NC_005887.1 + 29657 0.69 0.288384
Target:  5'- uCACGCGCGGCGCgaGGUagcacAGCUGgCGCu -3'
miRNA:   3'- -GUGCGCGCUGUGg-CCAc----UCGAC-GUGu -5'
28075 3' -58.5 NC_005887.1 + 23238 0.68 0.334528
Target:  5'- gCACGCgaGCGGCGgCGGUcGGC-GCGCAa -3'
miRNA:   3'- -GUGCG--CGCUGUgGCCAcUCGaCGUGU- -5'
28075 3' -58.5 NC_005887.1 + 37694 0.68 0.334528
Target:  5'- gCAUGCaaGCGACGCCGG-GGGCgaucagguucaGCGCGu -3'
miRNA:   3'- -GUGCG--CGCUGUGGCCaCUCGa----------CGUGU- -5'
28075 3' -58.5 NC_005887.1 + 36980 0.68 0.342725
Target:  5'- uCGCGCGgGucgagcuCGCCGGcGAGCacGCGCAg -3'
miRNA:   3'- -GUGCGCgCu------GUGGCCaCUCGa-CGUGU- -5'
28075 3' -58.5 NC_005887.1 + 11607 0.68 0.359549
Target:  5'- gGCGCuCGACACgcaGGUgcaGAGCgUGCGCAa -3'
miRNA:   3'- gUGCGcGCUGUGg--CCA---CUCG-ACGUGU- -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.