miRNA display CGI


Results 1 - 20 of 31 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
12998 3' -48.8 NC_003387.1 + 50559 1.13 0.002373
Target:  5'- gGGCGCUUUGUGUUGACACCUCAACAGg -3'
miRNA:   3'- -CCGCGAAACACAACUGUGGAGUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 49970 0.93 0.052288
Target:  5'- gGGCG-UUUGUGUUGACACCUCAACAc -3'
miRNA:   3'- -CCGCgAAACACAACUGUGGAGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 46388 0.86 0.140882
Target:  5'- gGGCGCagcGUGUUGACAgCUCAACAGu -3'
miRNA:   3'- -CCGCGaaaCACAACUGUgGAGUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 29877 0.84 0.19876
Target:  5'- gGGCGCUUUcGUGUUGACGggUCAACAGc -3'
miRNA:   3'- -CCGCGAAA-CACAACUGUggAGUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 23635 0.79 0.376185
Target:  5'- aGGCGCagaacUGUUGGCGCgUCAACAGg -3'
miRNA:   3'- -CCGCGaaac-ACAACUGUGgAGUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 47329 0.77 0.465572
Target:  5'- cGGCGUUUUcGUGUUGACAggUCAACAc -3'
miRNA:   3'- -CCGCGAAA-CACAACUGUggAGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 23606 0.76 0.519739
Target:  5'- -cCGCUgggGUGUUGAUACCcCAACAGc -3'
miRNA:   3'- ccGCGAaa-CACAACUGUGGaGUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 2128 0.75 0.553407
Target:  5'- cGUGCU----GUUGAUACCUCAACAGu -3'
miRNA:   3'- cCGCGAaacaCAACUGUGGAGUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 22810 0.73 0.680144
Target:  5'- aGUGC----UGUUGAUGCCUCAACAGu -3'
miRNA:   3'- cCGCGaaacACAACUGUGGAGUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 13421 0.71 0.769276
Target:  5'- cGGCGCUcgccgGUG-UGAacUACCUCGGCAa -3'
miRNA:   3'- -CCGCGAaa---CACaACU--GUGGAGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 36200 0.71 0.79026
Target:  5'- cGCGCUgc-UG-UGGCGCCUCGGCGu -3'
miRNA:   3'- cCGCGAaacACaACUGUGGAGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 2714 0.71 0.79026
Target:  5'- -cCGUcgUGcUGUUGAUACCUCAACAc -3'
miRNA:   3'- ccGCGaaAC-ACAACUGUGGAGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 44625 0.7 0.820336
Target:  5'- uGGCGCgagcgUGUGgcccUGGCcgcgGCCUCGGCGa -3'
miRNA:   3'- -CCGCGaa---ACACa---ACUG----UGGAGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 40322 0.7 0.839311
Target:  5'- cGGCGCaccgGaGUUGAuCGCCUgCAGCAGc -3'
miRNA:   3'- -CCGCGaaa-CaCAACU-GUGGA-GUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 49784 0.69 0.857321
Target:  5'- cGCGCUgcggGUUGGCGCCgaaccgCGACAc -3'
miRNA:   3'- cCGCGAaacaCAACUGUGGa-----GUUGUc -5'
12998 3' -48.8 NC_003387.1 + 26850 0.69 0.874288
Target:  5'- cGGCGagcUGUGgauGCACCUCGGCGa -3'
miRNA:   3'- -CCGCgaaACACaacUGUGGAGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 12024 0.68 0.91174
Target:  5'- cGGCGCaugcgGUGUggcagGGCAUCgUCGACAa -3'
miRNA:   3'- -CCGCGaaa--CACAa----CUGUGG-AGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 25177 0.68 0.918336
Target:  5'- cGGCGCg--GUGgccccGGCGCCgccgccgCGGCAGc -3'
miRNA:   3'- -CCGCGaaaCACaa---CUGUGGa------GUUGUC- -5'
12998 3' -48.8 NC_003387.1 + 52458 0.67 0.941662
Target:  5'- uGGC-CUUggGUGgcacUGACACCcUCGACAa -3'
miRNA:   3'- -CCGcGAAa-CACa---ACUGUGG-AGUUGUc -5'
12998 3' -48.8 NC_003387.1 + 900 0.67 0.948676
Target:  5'- cGGCGCgcucGUGUUcgcgcugugcaucaaGACGCCUaacaCGACGGu -3'
miRNA:   3'- -CCGCGaaa-CACAA---------------CUGUGGA----GUUGUC- -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.