miRNA display CGI


Results 1 - 20 of 38 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
16422 3' -54.8 NC_004084.1 + 56932 0.67 0.720102
Target:  5'- gGCGACGUCUaccaGGAggucguCGAUC-GCCGc- -3'
miRNA:   3'- gCGCUGCAGAg---CCU------GCUAGaCGGUuc -5'
16422 3' -54.8 NC_004084.1 + 56682 0.66 0.751306
Target:  5'- gGCGGCGggUCUCGGucacCGAUCgagcaGCCGc- -3'
miRNA:   3'- gCGCUGC--AGAGCCu---GCUAGa----CGGUuc -5'
16422 3' -54.8 NC_004084.1 + 54263 0.71 0.475189
Target:  5'- cCGCGACGUCaUCGGcCG-UCUGgUAAGc -3'
miRNA:   3'- -GCGCUGCAG-AGCCuGCuAGACgGUUC- -5'
16422 3' -54.8 NC_004084.1 + 52593 0.68 0.677352
Target:  5'- gGCGugGUC-CGGugGGUCgagGCa--- -3'
miRNA:   3'- gCGCugCAGaGCCugCUAGa--CGguuc -5'
16422 3' -54.8 NC_004084.1 + 51605 0.68 0.633927
Target:  5'- uCGUGACGUCUCuGGCGAcaUCgauUGCCuucGAGa -3'
miRNA:   3'- -GCGCUGCAGAGcCUGCU--AG---ACGG---UUC- -5'
16422 3' -54.8 NC_004084.1 + 50271 0.67 0.741008
Target:  5'- gGCGAgGUcCUC-GACG-UCUGCCGAc -3'
miRNA:   3'- gCGCUgCA-GAGcCUGCuAGACGGUUc -5'
16422 3' -54.8 NC_004084.1 + 50132 0.67 0.709515
Target:  5'- cCGCGAuCGUC-CGGAUGAcgaggucgUUGUCGAGg -3'
miRNA:   3'- -GCGCU-GCAGaGCCUGCUa-------GACGGUUC- -5'
16422 3' -54.8 NC_004084.1 + 47017 0.7 0.558207
Target:  5'- uCGUGGCG-CUCagcguGGugGAagcggaUCUGCCAGGg -3'
miRNA:   3'- -GCGCUGCaGAG-----CCugCU------AGACGGUUC- -5'
16422 3' -54.8 NC_004084.1 + 46860 0.72 0.436028
Target:  5'- cCGUGaACGUCUCcuguGGGCGGUCUGCgAu- -3'
miRNA:   3'- -GCGC-UGCAGAG----CCUGCUAGACGgUuc -5'
16422 3' -54.8 NC_004084.1 + 46706 0.68 0.655682
Target:  5'- gGCGACGUCUacCGcGACGAgugGUCGGGc -3'
miRNA:   3'- gCGCUGCAGA--GC-CUGCUagaCGGUUC- -5'
16422 3' -54.8 NC_004084.1 + 46500 0.66 0.7912
Target:  5'- uCGCGACGUCgc---CGGUC-GCCGAGu -3'
miRNA:   3'- -GCGCUGCAGagccuGCUAGaCGGUUC- -5'
16422 3' -54.8 NC_004084.1 + 45644 0.66 0.800795
Target:  5'- uCGaCGGCGUCUCGGA-----UGCCGAc -3'
miRNA:   3'- -GC-GCUGCAGAGCCUgcuagACGGUUc -5'
16422 3' -54.8 NC_004084.1 + 43332 0.67 0.698854
Target:  5'- cCGaCGACGag-UGGACGGUCUcgaacGCCGAGu -3'
miRNA:   3'- -GC-GCUGCagaGCCUGCUAGA-----CGGUUC- -5'
16422 3' -54.8 NC_004084.1 + 39621 0.66 0.751306
Target:  5'- gGCGACGUcCUCGacgaguCGAUCguacgcgacGCCGAGg -3'
miRNA:   3'- gCGCUGCA-GAGCcu----GCUAGa--------CGGUUC- -5'
16422 3' -54.8 NC_004084.1 + 30232 0.7 0.568914
Target:  5'- gGCGAUGUC-CGcGGCGAcgUCgaacagGCCGAGg -3'
miRNA:   3'- gCGCUGCAGaGC-CUGCU--AGa-----CGGUUC- -5'
16422 3' -54.8 NC_004084.1 + 29345 0.66 0.761485
Target:  5'- gGCGACGaCgcccccgagCGGGCGGUCgcgGCCu-- -3'
miRNA:   3'- gCGCUGCaGa--------GCCUGCUAGa--CGGuuc -5'
16422 3' -54.8 NC_004084.1 + 27838 0.66 0.800795
Target:  5'- cCGCGAgGUCaCGGACGAgCUGa-AGGa -3'
miRNA:   3'- -GCGCUgCAGaGCCUGCUaGACggUUC- -5'
16422 3' -54.8 NC_004084.1 + 27552 0.66 0.770536
Target:  5'- cCGCGcacaaggGCcUCcCGGACGGUC-GCCAGGa -3'
miRNA:   3'- -GCGC-------UGcAGaGCCUGCUAGaCGGUUC- -5'
16422 3' -54.8 NC_004084.1 + 27091 1.08 0.001683
Target:  5'- uCGCGACGUCUCGGACGAUCUGCCAAGc -3'
miRNA:   3'- -GCGCUGCAGAGCCUGCUAGACGGUUC- -5'
16422 3' -54.8 NC_004084.1 + 24558 0.73 0.389808
Target:  5'- uCGCGAgGUCUCcuGGAUGAaacCUGCCGAu -3'
miRNA:   3'- -GCGCUgCAGAG--CCUGCUa--GACGGUUc -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.