miRNA display CGI


Results 1 - 20 of 65 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
20135 3' -59.7 NC_004687.1 + 45823 0.65 0.786643
Target:  5'- gCCggUGCCGAAGGUgCCggagaaguacaGGCCCAUg -3'
miRNA:   3'- gGG--ACGGCUUCCGgGGaa---------CUGGGUGa -5'
20135 3' -59.7 NC_004687.1 + 59871 0.66 0.779464
Target:  5'- aCCagGCauaGAAGaGCCC--UGGCCCACUg -3'
miRNA:   3'- gGGa-CGg--CUUC-CGGGgaACUGGGUGA- -5'
20135 3' -59.7 NC_004687.1 + 154936 0.66 0.779464
Target:  5'- aCCggugGUCGcGGGCUCCUggGGCCCGa- -3'
miRNA:   3'- gGGa---CGGCuUCCGGGGAa-CUGGGUga -5'
20135 3' -59.7 NC_004687.1 + 107099 0.66 0.770378
Target:  5'- gCCUacGCCGAGGaCCUCcUGGCCCAg- -3'
miRNA:   3'- gGGA--CGGCUUCcGGGGaACUGGGUga -5'
20135 3' -59.7 NC_004687.1 + 58982 0.66 0.770378
Target:  5'- gCCCUGUa-GAGGCCucacagCCUcuGCCCGCUa -3'
miRNA:   3'- -GGGACGgcUUCCGG------GGAacUGGGUGA- -5'
20135 3' -59.7 NC_004687.1 + 43210 0.66 0.770378
Target:  5'- gCUUGCCGGAGGCg---UGGCCCGu- -3'
miRNA:   3'- gGGACGGCUUCCGgggaACUGGGUga -5'
20135 3' -59.7 NC_004687.1 + 88852 0.66 0.761176
Target:  5'- aUCaagGCCGAAGGCCUgcagcagcUGGCCUACUu -3'
miRNA:   3'- -GGga-CGGCUUCCGGGga------ACUGGGUGA- -5'
20135 3' -59.7 NC_004687.1 + 133685 0.66 0.761176
Target:  5'- gCCUGCuCGAccccgAGGCugccgcaaCCC-UGGCCCACc -3'
miRNA:   3'- gGGACG-GCU-----UCCG--------GGGaACUGGGUGa -5'
20135 3' -59.7 NC_004687.1 + 40834 0.66 0.761176
Target:  5'- aCCgGcCCGGgaauaguuccuGGGCCCCUUccACCCACa -3'
miRNA:   3'- gGGaC-GGCU-----------UCCGGGGAAc-UGGGUGa -5'
20135 3' -59.7 NC_004687.1 + 28183 0.66 0.761176
Target:  5'- gCCUUGCCGucGGCCUCgccgGuCaCCACc -3'
miRNA:   3'- -GGGACGGCuuCCGGGGaa--CuG-GGUGa -5'
20135 3' -59.7 NC_004687.1 + 135828 0.66 0.761176
Target:  5'- aCCUGCCGuucaGCCUCUcgGaaGCCCGCa -3'
miRNA:   3'- gGGACGGCuuc-CGGGGAa-C--UGGGUGa -5'
20135 3' -59.7 NC_004687.1 + 1483 0.66 0.751866
Target:  5'- aCCggaaaaauCCGGAGGCCCUggagcgcguaUUGGCCCAgUa -3'
miRNA:   3'- gGGac------GGCUUCCGGGG----------AACUGGGUgA- -5'
20135 3' -59.7 NC_004687.1 + 130190 0.66 0.751866
Target:  5'- aCgCUGCCGGAGGCUUC---GCCUACc -3'
miRNA:   3'- -GgGACGGCUUCCGGGGaacUGGGUGa -5'
20135 3' -59.7 NC_004687.1 + 141893 0.66 0.750929
Target:  5'- gCCUGCgGAuGGUCuccucggcacgggCCUUGGCCUGCUc -3'
miRNA:   3'- gGGACGgCUuCCGG-------------GGAACUGGGUGA- -5'
20135 3' -59.7 NC_004687.1 + 105828 0.66 0.742455
Target:  5'- aCCUUGCUGGAcuucuuGGCCUCgccgggGGCCCAg- -3'
miRNA:   3'- -GGGACGGCUU------CCGGGGaa----CUGGGUga -5'
20135 3' -59.7 NC_004687.1 + 119784 0.67 0.732954
Target:  5'- aUCCgGCUGAAGGCCUCc--ACCCAg- -3'
miRNA:   3'- -GGGaCGGCUUCCGGGGaacUGGGUga -5'
20135 3' -59.7 NC_004687.1 + 152701 0.67 0.731999
Target:  5'- gCCUGCUGcagcgcaAGGGCCUgauCgagGACCCGCa -3'
miRNA:   3'- gGGACGGC-------UUCCGGG---Gaa-CUGGGUGa -5'
20135 3' -59.7 NC_004687.1 + 82144 0.67 0.730087
Target:  5'- gCCUGCCGGu-GCCgCCgucgaguagccgccgGGCCCGCUg -3'
miRNA:   3'- gGGACGGCUucCGG-GGaa-------------CUGGGUGA- -5'
20135 3' -59.7 NC_004687.1 + 64804 0.67 0.719514
Target:  5'- ---cGCCG-GGGCCCCgggccgguacgcGACCCACa -3'
miRNA:   3'- gggaCGGCuUCCGGGGaa----------CUGGGUGa -5'
20135 3' -59.7 NC_004687.1 + 88957 0.67 0.713711
Target:  5'- gCCCUGCCGAuccgGGGCaCCgaCUggugGAUCUACc -3'
miRNA:   3'- -GGGACGGCU----UCCG-GG--GAa---CUGGGUGa -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.