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
23449 3' -54.2 NC_005259.1 + 412 0.71 0.568867
Target:  5'- aGCAGcgcgUGCcCGUCGAGGaugACGCaCCg -3'
miRNA:   3'- -CGUCa---ACGcGCAGCUCCaa-UGCGcGG- -5'
23449 3' -54.2 NC_005259.1 + 1885 0.7 0.629169
Target:  5'- aGCAGgccgccgagaucGCGCGagcugcCGAGGaaGCGCGCCg -3'
miRNA:   3'- -CGUCaa----------CGCGCa-----GCUCCaaUGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 7241 0.66 0.861177
Target:  5'- gGCAGccGCGCcgguGUCGAG----UGCGCCa -3'
miRNA:   3'- -CGUCaaCGCG----CAGCUCcaauGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 8742 0.66 0.852999
Target:  5'- gGCAGUcaGCcCGUCGAGGUcgAgGCccuugGCCa -3'
miRNA:   3'- -CGUCAa-CGcGCAGCUCCAa-UgCG-----CGG- -5'
23449 3' -54.2 NC_005259.1 + 10655 0.68 0.719191
Target:  5'- cGCGGUcgaGCGCcUUGAGGaUGgucUGCGCCg -3'
miRNA:   3'- -CGUCAa--CGCGcAGCUCCaAU---GCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 13631 0.7 0.633497
Target:  5'- uGCGGgccGCucaaCGUCGAcGGcUACGCGCCc -3'
miRNA:   3'- -CGUCaa-CGc---GCAGCU-CCaAUGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 14077 0.66 0.844597
Target:  5'- gGCGGUggccuacgUGCGCagcgagGUCGAGGgUGCGgaaacgcaUGCCa -3'
miRNA:   3'- -CGUCA--------ACGCG------CAGCUCCaAUGC--------GCGG- -5'
23449 3' -54.2 NC_005259.1 + 14854 0.7 0.633497
Target:  5'- aCGGUcGUGCucgCGAGGUU-CGCGCUg -3'
miRNA:   3'- cGUCAaCGCGca-GCUCCAAuGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 23293 0.66 0.818132
Target:  5'- gGUGGUUGgGUaUCGGGGUccgGCGCGgUCg -3'
miRNA:   3'- -CGUCAACgCGcAGCUCCAa--UGCGC-GG- -5'
23449 3' -54.2 NC_005259.1 + 27145 0.66 0.852999
Target:  5'- gGCGGcUGCgGUGUUGGGGccaACGaUGCCg -3'
miRNA:   3'- -CGUCaACG-CGCAGCUCCaa-UGC-GCGG- -5'
23449 3' -54.2 NC_005259.1 + 27835 0.74 0.417933
Target:  5'- ----cUGCGCGagguaggccgCGAGGUcGCGCGCCg -3'
miRNA:   3'- cgucaACGCGCa---------GCUCCAaUGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 27999 0.73 0.455968
Target:  5'- uGCGGgugccgggGCGgGgucgcCGGGGUUGCGCGCg -3'
miRNA:   3'- -CGUCaa------CGCgCa----GCUCCAAUGCGCGg -5'
23449 3' -54.2 NC_005259.1 + 28899 0.66 0.861177
Target:  5'- aGCAGaUUGUcgGCGaCGAGGa-ACGcCGCCu -3'
miRNA:   3'- -CGUC-AACG--CGCaGCUCCaaUGC-GCGG- -5'
23449 3' -54.2 NC_005259.1 + 31065 0.66 0.861177
Target:  5'- aUAGUUGauCGggucggCGAGGUUcccgaGCGCGUCg -3'
miRNA:   3'- cGUCAACgcGCa-----GCUCCAA-----UGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 32169 0.72 0.49579
Target:  5'- cGUAGUaGCGCGU-GAGcucgcUGCGCGCCu -3'
miRNA:   3'- -CGUCAaCGCGCAgCUCca---AUGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 32321 0.7 0.644318
Target:  5'- cGCAGUgcccgccaauugUGCGCGgccaucaacgCGAGGUUGaugacCGCCg -3'
miRNA:   3'- -CGUCA------------ACGCGCa---------GCUCCAAUgc---GCGG- -5'
23449 3' -54.2 NC_005259.1 + 35243 0.67 0.780249
Target:  5'- uGCAGUcUGCGCacucgCGuuGUU-CGCGCCc -3'
miRNA:   3'- -CGUCA-ACGCGca---GCucCAAuGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 38846 0.69 0.698056
Target:  5'- uGCuGUaGCGCGuucUCGAuGUUcgACGCGCCc -3'
miRNA:   3'- -CGuCAaCGCGC---AGCUcCAA--UGCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 39089 0.66 0.844597
Target:  5'- aCAGUccguugaGCGgGUUGAGGUgcugcaauCGCGUCa -3'
miRNA:   3'- cGUCAa------CGCgCAGCUCCAau------GCGCGG- -5'
23449 3' -54.2 NC_005259.1 + 41371 0.66 0.824468
Target:  5'- aCAGcgUGCG-GUCGAGcUUggccgguacccaugGCGCGCCg -3'
miRNA:   3'- cGUCa-ACGCgCAGCUCcAA--------------UGCGCGG- -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.