miRNA display CGI


Results 1 - 20 of 37 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
2049 3' -55 NC_001347.2 + 2110 0.74 0.731806
Target:  5'- cGGCGGGGGcGCGAUUUgcgUGCcuaACGCGGa -3'
miRNA:   3'- -CCGCUCUCcUGCUAGAa--GCG---UGCGCC- -5'
2049 3' -55 NC_001347.2 + 2373 0.67 0.972805
Target:  5'- uGGCGcuGGGACGcgaGUCggCGCccgccgccgaggccGCGCGGc -3'
miRNA:   3'- -CCGCucUCCUGC---UAGaaGCG--------------UGCGCC- -5'
2049 3' -55 NC_001347.2 + 5622 0.68 0.950891
Target:  5'- cGCGAGaAGGcccgcACGGUCUUC-CAaGCGGg -3'
miRNA:   3'- cCGCUC-UCC-----UGCUAGAAGcGUgCGCC- -5'
2049 3' -55 NC_001347.2 + 68097 0.68 0.946411
Target:  5'- cGGCaGAcGAGGACGAcuuuuugcgccguUCUUCGUgACGCu- -3'
miRNA:   3'- -CCG-CU-CUCCUGCU-------------AGAAGCG-UGCGcc -5'
2049 3' -55 NC_001347.2 + 73563 0.73 0.750502
Target:  5'- cGGCGAc-GGAUGGgcg-CGCACGCGGa -3'
miRNA:   3'- -CCGCUcuCCUGCUagaaGCGUGCGCC- -5'
2049 3' -55 NC_001347.2 + 77099 0.7 0.874191
Target:  5'- aGGCG-GAGGAgugaaCGGUCgucgUUGC-CGCGGc -3'
miRNA:   3'- -CCGCuCUCCU-----GCUAGa---AGCGuGCGCC- -5'
2049 3' -55 NC_001347.2 + 77230 0.68 0.956222
Target:  5'- cGCGAGAGGgacuugaccuugucgACGAUCcgUUCGaucUugGCGGc -3'
miRNA:   3'- cCGCUCUCC---------------UGCUAG--AAGC---GugCGCC- -5'
2049 3' -55 NC_001347.2 + 77522 0.68 0.958381
Target:  5'- uGGcCGAGGaGugGAag-UUGCACGCGGc -3'
miRNA:   3'- -CC-GCUCUcCugCUagaAGCGUGCGCC- -5'
2049 3' -55 NC_001347.2 + 78609 0.69 0.93334
Target:  5'- cGGCGcGAGGACuccauGAgcCUgggCGCGCGCGa -3'
miRNA:   3'- -CCGCuCUCCUG-----CUa-GAa--GCGUGCGCc -5'
2049 3' -55 NC_001347.2 + 82906 0.66 0.984974
Target:  5'- aGCGAGcGGGCcgccgCUaucgccauggcccccUCGCACGUGGa -3'
miRNA:   3'- cCGCUCuCCUGcua--GA---------------AGCGUGCGCC- -5'
2049 3' -55 NC_001347.2 + 84347 0.68 0.958027
Target:  5'- gGGUGGGuGGACGuugugaaAUCUUCuuuugGCGCGGa -3'
miRNA:   3'- -CCGCUCuCCUGC-------UAGAAGcg---UGCGCC- -5'
2049 3' -55 NC_001347.2 + 104324 0.65 0.985959
Target:  5'- cGGCacGAcGAGGugGAccgCUggauccgGCACGCGGc -3'
miRNA:   3'- -CCG--CU-CUCCugCUa--GAag-----CGUGCGCC- -5'
2049 3' -55 NC_001347.2 + 113090 0.66 0.978362
Target:  5'- cGCGGGAagaacGGACGGcgacgCUggaagCGCAgGCGGc -3'
miRNA:   3'- cCGCUCU-----CCUGCUa----GAa----GCGUgCGCC- -5'
2049 3' -55 NC_001347.2 + 113156 0.69 0.917873
Target:  5'- aGGCGAcGGGGACGAagagggaaCGCGCGCc- -3'
miRNA:   3'- -CCGCU-CUCCUGCUagaa----GCGUGCGcc -5'
2049 3' -55 NC_001347.2 + 126020 0.69 0.93334
Target:  5'- cGGCGGGuGG-CGcccGUCUUCGC-CGUGa -3'
miRNA:   3'- -CCGCUCuCCuGC---UAGAAGCGuGCGCc -5'
2049 3' -55 NC_001347.2 + 128463 0.68 0.950891
Target:  5'- cGGCGcGAcGGCGcg---CGCACGCGGg -3'
miRNA:   3'- -CCGCuCUcCUGCuagaaGCGUGCGCC- -5'
2049 3' -55 NC_001347.2 + 136138 0.71 0.852402
Target:  5'- gGGCGGGAGGcagGCGGgagCgggCGCAgcgUGCGGa -3'
miRNA:   3'- -CCGCUCUCC---UGCUa--Gaa-GCGU---GCGCC- -5'
2049 3' -55 NC_001347.2 + 140618 0.66 0.978362
Target:  5'- gGGCccGAGcGACGGUCUggguggCGguCGUGGu -3'
miRNA:   3'- -CCGcuCUC-CUGCUAGAa-----GCguGCGCC- -5'
2049 3' -55 NC_001347.2 + 142390 0.69 0.916217
Target:  5'- gGGgGGGAGGugcACGAccugucggcgcUCUUCGCgcccaguggcgucgGCGCGGc -3'
miRNA:   3'- -CCgCUCUCC---UGCU-----------AGAAGCG--------------UGCGCC- -5'
2049 3' -55 NC_001347.2 + 142449 0.67 0.967788
Target:  5'- cGGCGucgGGGGuGGCGGUCUUCuucucgGCGaguccguCGCGGg -3'
miRNA:   3'- -CCGC---UCUC-CUGCUAGAAG------CGU-------GCGCC- -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.