miRNA display CGI


Results 1 - 20 of 33 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
32229 3' -57.6 NC_007016.1 + 849 0.66 0.759195
Target:  5'- aCCUGCcggGCagaucugGGCC-GCUUGCccGGCg -3'
miRNA:   3'- cGGACGaa-CGa------CCGGaCGAACGa-CCG- -5'
32229 3' -57.6 NC_007016.1 + 130368 0.66 0.749421
Target:  5'- cGCCgcgGCUUGUggGGCCccggGCUcgGggGGCg -3'
miRNA:   3'- -CGGa--CGAACGa-CCGGa---CGAa-CgaCCG- -5'
32229 3' -57.6 NC_007016.1 + 28114 0.67 0.739541
Target:  5'- cGCCUGCUaG-UGGCgCUgaGCUacUGCUuGGCg -3'
miRNA:   3'- -CGGACGAaCgACCG-GA--CGA--ACGA-CCG- -5'
32229 3' -57.6 NC_007016.1 + 107454 0.67 0.708336
Target:  5'- gGCCUgggcccuucggacGCgggacUGCUGGCCUcGCUgcgagaaCUGGCg -3'
miRNA:   3'- -CGGA-------------CGa----ACGACCGGA-CGAac-----GACCG- -5'
32229 3' -57.6 NC_007016.1 + 105485 0.67 0.699144
Target:  5'- uGCCU-CUgGUUGGCgagagGCUaUGCUGGCg -3'
miRNA:   3'- -CGGAcGAaCGACCGga---CGA-ACGACCG- -5'
32229 3' -57.6 NC_007016.1 + 86812 0.68 0.678556
Target:  5'- uGCCUGCacaaacguuccUUGCaaGGgUUGCUUgggaGCUGGCa -3'
miRNA:   3'- -CGGACG-----------AACGa-CCgGACGAA----CGACCG- -5'
32229 3' -57.6 NC_007016.1 + 21548 0.68 0.647401
Target:  5'- aGCCUGCUugacgaUGCUuccgacgaaGGCCUGgaguCUGGCa -3'
miRNA:   3'- -CGGACGA------ACGA---------CCGGACgaacGACCG- -5'
32229 3' -57.6 NC_007016.1 + 119098 0.7 0.558219
Target:  5'- cGCCUG-UUGCguguuaggggauggGGCCUGUUgaggcGUUGGCg -3'
miRNA:   3'- -CGGACgAACGa-------------CCGGACGAa----CGACCG- -5'
32229 3' -57.6 NC_007016.1 + 84 0.74 0.34668
Target:  5'- uGCUUGUggaacacuauggccUGCUGGCCUGCUcgcuUGCUuGGUa -3'
miRNA:   3'- -CGGACGa-------------ACGACCGGACGA----ACGA-CCG- -5'
32229 3' -57.6 NC_007016.1 + 130460 0.74 0.34668
Target:  5'- uGCUUGUggaacacuauggccUGCUGGCCUGCUcgcuUGCUuGGUa -3'
miRNA:   3'- -CGGACGa-------------ACGACCGGACGA----ACGA-CCG- -5'
32229 3' -57.6 NC_007016.1 + 130950 0.75 0.305998
Target:  5'- uGCCUGCUUGCUugcugcugaguaGGaCUGCUaggGCUGGa -3'
miRNA:   3'- -CGGACGAACGA------------CCgGACGAa--CGACCg -5'
32229 3' -57.6 NC_007016.1 + 130880 0.75 0.303848
Target:  5'- uGCCUGCUUGCUugcugcugaGgggacaguagggcuGCCUGCUUGCUuGCu -3'
miRNA:   3'- -CGGACGAACGA---------C--------------CGGACGAACGAcCG- -5'
32229 3' -57.6 NC_007016.1 + 494 0.75 0.303848
Target:  5'- uGCCUGCUUGCUugcugcugaGgggacaguagggcuGCCUGCUUGCUuGCu -3'
miRNA:   3'- -CGGACGAACGA---------C--------------CGGACGAACGAcCG- -5'
32229 3' -57.6 NC_007016.1 + 564 0.78 0.191996
Target:  5'- uGCCUGCUUGCUugcugcugaguaGGaCUGCUaggGCUGGUa -3'
miRNA:   3'- -CGGACGAACGA------------CCgGACGAa--CGACCG- -5'
32229 3' -57.6 NC_007016.1 + 231 0.84 0.073973
Target:  5'- nCCUGCUUGCUGGCCUGCUuUGCUn-- -3'
miRNA:   3'- cGGACGAACGACCGGACGA-ACGAccg -5'
32229 3' -57.6 NC_007016.1 + 130715 0.87 0.04766
Target:  5'- nCCUGCUUGCUGGCCUGCUUGCn--- -3'
miRNA:   3'- cGGACGAACGACCGGACGAACGaccg -5'
32229 3' -57.6 NC_007016.1 + 130834 0.96 0.010514
Target:  5'- nCCUGCUUGCUGGCCUGCUUGCUuGCu -3'
miRNA:   3'- cGGACGAACGACCGGACGAACGAcCG- -5'
32229 3' -57.6 NC_007016.1 + 130737 1.12 0.000801
Target:  5'- uGCCUGCUUGCUGGCCUGCUUGCUGGCc -3'
miRNA:   3'- -CGGACGAACGACCGGACGAACGACCG- -5'
32229 3' -57.6 NC_007016.1 + 130773 1.12 0.000801
Target:  5'- gGCCUGCUUGCUGGCCUGCUUGCUGGCc -3'
miRNA:   3'- -CGGACGAACGACCGGACGAACGACCG- -5'
32229 3' -57.6 NC_007016.1 + 399 1.12 0.000801
Target:  5'- gGCCUGCUUGCUGGCCUGCUUGCUGGCc -3'
miRNA:   3'- -CGGACGAACGACCGGACGAACGACCG- -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.