miRNA display CGI


Results 1 - 20 of 36 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
17000 3' -54 NC_004333.2 + 34375 0.66 0.792049
Target:  5'- gCGUCUCGCGcGUCaGUucGAagUGGACGUGAg -3'
miRNA:   3'- -GCAGAGUGC-CAG-CA--CU--GCUUGCGCUg -5'
17000 3' -54 NC_004333.2 + 20212 0.66 0.792049
Target:  5'- gCGgCUCGCGcuuUCGUGGCGGcgaucgacCGCGACu -3'
miRNA:   3'- -GCaGAGUGCc--AGCACUGCUu-------GCGCUG- -5'
17000 3' -54 NC_004333.2 + 39989 0.66 0.782171
Target:  5'- aCGUCUCgACGccgcucacugaGUaCGcGAUGGACGCGGCc -3'
miRNA:   3'- -GCAGAG-UGC-----------CA-GCaCUGCUUGCGCUG- -5'
17000 3' -54 NC_004333.2 + 13350 0.66 0.782171
Target:  5'- -uUCggCACGGU-GU-ACGGGCGCGGCa -3'
miRNA:   3'- gcAGa-GUGCCAgCAcUGCUUGCGCUG- -5'
17000 3' -54 NC_004333.2 + 9261 0.66 0.781174
Target:  5'- uCGUCUCGugcuuguUGGcCGUGcCGAucaGCGCGAa -3'
miRNA:   3'- -GCAGAGU-------GCCaGCACuGCU---UGCGCUg -5'
17000 3' -54 NC_004333.2 + 6620 0.66 0.772136
Target:  5'- gCGUUgaagC-CGGUCGUGAgcauCGCGACg -3'
miRNA:   3'- -GCAGa---GuGCCAGCACUgcuuGCGCUG- -5'
17000 3' -54 NC_004333.2 + 40853 0.66 0.772136
Target:  5'- gCGcCUUcUGGUCGccGGCGAuggucGCGCGACu -3'
miRNA:   3'- -GCaGAGuGCCAGCa-CUGCU-----UGCGCUG- -5'
17000 3' -54 NC_004333.2 + 32097 0.66 0.772136
Target:  5'- gCGUCggCGCGuUCaGUGACGGcaguuccgACGCGAUa -3'
miRNA:   3'- -GCAGa-GUGCcAG-CACUGCU--------UGCGCUG- -5'
17000 3' -54 NC_004333.2 + 30684 0.66 0.761956
Target:  5'- gGUCggUGCGGUCGaguGCGAgcagcgugaGCGCGGCg -3'
miRNA:   3'- gCAGa-GUGCCAGCac-UGCU---------UGCGCUG- -5'
17000 3' -54 NC_004333.2 + 17442 0.66 0.761956
Target:  5'- aCGUCgcccgggCAcCGGaUGUGGCGcAACGCGAa -3'
miRNA:   3'- -GCAGa------GU-GCCaGCACUGC-UUGCGCUg -5'
17000 3' -54 NC_004333.2 + 33164 0.67 0.751643
Target:  5'- aGUUUCGCGG-CGUcGGCGucgGCGGCc -3'
miRNA:   3'- gCAGAGUGCCaGCA-CUGCuugCGCUG- -5'
17000 3' -54 NC_004333.2 + 15607 0.67 0.751643
Target:  5'- uCGUCggUCACGGUUucGGCGAACgucgugccguugGCGACc -3'
miRNA:   3'- -GCAG--AGUGCCAGcaCUGCUUG------------CGCUG- -5'
17000 3' -54 NC_004333.2 + 1024 0.67 0.720015
Target:  5'- gCGUCagAUGcGcaUCGggGACGAACGCGAUg -3'
miRNA:   3'- -GCAGagUGC-C--AGCa-CUGCUUGCGCUG- -5'
17000 3' -54 NC_004333.2 + 19560 0.67 0.713584
Target:  5'- gGUCgCACGGUCGgcGCGGcacaaggggaaucgcGCGCGAUc -3'
miRNA:   3'- gCAGaGUGCCAGCacUGCU---------------UGCGCUG- -5'
17000 3' -54 NC_004333.2 + 28955 0.67 0.709281
Target:  5'- gCGUUguucaCGCGGUCGaacgcGGCGAucaguuGCGCGGCc -3'
miRNA:   3'- -GCAGa----GUGCCAGCa----CUGCU------UGCGCUG- -5'
17000 3' -54 NC_004333.2 + 31909 0.67 0.709281
Target:  5'- aGUCggagC-CGGUCuUGACGAGUGUGACu -3'
miRNA:   3'- gCAGa---GuGCCAGcACUGCUUGCGCUG- -5'
17000 3' -54 NC_004333.2 + 22885 0.67 0.698472
Target:  5'- uCGUaCUgGCGcUCGUGACGAgcagaaGCGCGGu -3'
miRNA:   3'- -GCA-GAgUGCcAGCACUGCU------UGCGCUg -5'
17000 3' -54 NC_004333.2 + 40521 0.68 0.67667
Target:  5'- aGUCgaaGCGGUCGUGaACGAAgucguCGCG-Cu -3'
miRNA:   3'- gCAGag-UGCCAGCAC-UGCUU-----GCGCuG- -5'
17000 3' -54 NC_004333.2 + 33055 0.68 0.6657
Target:  5'- gCGUa--GCGGUCGgccACGAGCGCuGGCa -3'
miRNA:   3'- -GCAgagUGCCAGCac-UGCUUGCG-CUG- -5'
17000 3' -54 NC_004333.2 + 35447 0.68 0.654698
Target:  5'- uGUUUaguGCGGUCGUGACcgucAACGuCGGCa -3'
miRNA:   3'- gCAGAg--UGCCAGCACUGc---UUGC-GCUG- -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.