miRNA display CGI


Results 1 - 20 of 23 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
26650 3' -59.9 NC_005808.1 + 7244 1.11 0.000188
Target:  5'- cGGCUGCGUCAGGGCGUCAGCGCGUCGg -3'
miRNA:   3'- -CCGACGCAGUCCCGCAGUCGCGCAGC- -5'
26650 3' -59.9 NC_005808.1 + 32934 0.73 0.137642
Target:  5'- cGGCUGUucgGcCAGGGCGaccaCGGCuGCGUCGa -3'
miRNA:   3'- -CCGACG---CaGUCCCGCa---GUCG-CGCAGC- -5'
26650 3' -59.9 NC_005808.1 + 12278 0.72 0.161485
Target:  5'- uGCUGCGUCccgaccaGGGGCaggCAGCGCGggcCGg -3'
miRNA:   3'- cCGACGCAG-------UCCCGca-GUCGCGCa--GC- -5'
26650 3' -59.9 NC_005808.1 + 32091 0.72 0.161919
Target:  5'- gGGUUcaaUGUCGuGGGCGUcCAGCGUGUCGa -3'
miRNA:   3'- -CCGAc--GCAGU-CCCGCA-GUCGCGCAGC- -5'
26650 3' -59.9 NC_005808.1 + 8826 0.72 0.166323
Target:  5'- uGCUGgGUCGGGccagccgcaacGCGggcCAGCGCGUUGg -3'
miRNA:   3'- cCGACgCAGUCC-----------CGCa--GUCGCGCAGC- -5'
26650 3' -59.9 NC_005808.1 + 40008 0.71 0.185028
Target:  5'- cGGUUGCaaCAGGGCGgcaAGCGCG-CGc -3'
miRNA:   3'- -CCGACGcaGUCCCGCag-UCGCGCaGC- -5'
26650 3' -59.9 NC_005808.1 + 16142 0.69 0.258382
Target:  5'- aGGaCUGCGgccgCAcgcugauggugguGGGCGUUAcCGCGUCGg -3'
miRNA:   3'- -CC-GACGCa---GU-------------CCCGCAGUcGCGCAGC- -5'
26650 3' -59.9 NC_005808.1 + 12494 0.69 0.265631
Target:  5'- aGCcGCGcaCAGuGGCGUuuuucaugaaCAGCGCGUCGa -3'
miRNA:   3'- cCGaCGCa-GUC-CCGCA----------GUCGCGCAGC- -5'
26650 3' -59.9 NC_005808.1 + 874 0.68 0.293377
Target:  5'- cGGCaaggGCu---GGGCG-CGGCGCGUCGc -3'
miRNA:   3'- -CCGa---CGcaguCCCGCaGUCGCGCAGC- -5'
26650 3' -59.9 NC_005808.1 + 27065 0.68 0.300657
Target:  5'- --aUGC-UCAGGGCGUCAGCcccuGCugGUCGa -3'
miRNA:   3'- ccgACGcAGUCCCGCAGUCG----CG--CAGC- -5'
26650 3' -59.9 NC_005808.1 + 25063 0.68 0.314873
Target:  5'- cGCUGuCGUCGGcccccuuugugcuGGUggGUgGGCGCGUCGa -3'
miRNA:   3'- cCGAC-GCAGUC-------------CCG--CAgUCGCGCAGC- -5'
26650 3' -59.9 NC_005808.1 + 35516 0.67 0.347259
Target:  5'- cGGCUGCGgccuggaugacCAGGGCcg-GGCGCuuGUCGg -3'
miRNA:   3'- -CCGACGCa----------GUCCCGcagUCGCG--CAGC- -5'
26650 3' -59.9 NC_005808.1 + 8127 0.67 0.35468
Target:  5'- cGGCcgGCGUUGguugugggcgugcGGGUGUCGGCgcuGCGUCc -3'
miRNA:   3'- -CCGa-CGCAGU-------------CCCGCAGUCG---CGCAGc -5'
26650 3' -59.9 NC_005808.1 + 14744 0.67 0.3639
Target:  5'- aGGCaguacGCG-CAGcauuGGCGcgCAGCGUGUCGg -3'
miRNA:   3'- -CCGa----CGCaGUC----CCGCa-GUCGCGCAGC- -5'
26650 3' -59.9 NC_005808.1 + 32173 0.67 0.3639
Target:  5'- cGGCaGCGgcCAGGGCGUugagcaacgCGGcCGUGUUGg -3'
miRNA:   3'- -CCGaCGCa-GUCCCGCA---------GUC-GCGCAGC- -5'
26650 3' -59.9 NC_005808.1 + 4859 0.67 0.3639
Target:  5'- aGGUUGCccgGUCAGGuCGUugccCAGCGCGgCGa -3'
miRNA:   3'- -CCGACG---CAGUCCcGCA----GUCGCGCaGC- -5'
26650 3' -59.9 NC_005808.1 + 24598 0.66 0.398804
Target:  5'- cGGC-GUGUCcuugccGGGGUagGUCAGCGgcaCGUCGa -3'
miRNA:   3'- -CCGaCGCAG------UCCCG--CAGUCGC---GCAGC- -5'
26650 3' -59.9 NC_005808.1 + 20615 0.66 0.407859
Target:  5'- aGGCgGCGUCGcaggucGGUGUCGGCcuGCGcUCGu -3'
miRNA:   3'- -CCGaCGCAGUc-----CCGCAGUCG--CGC-AGC- -5'
26650 3' -59.9 NC_005808.1 + 8553 0.66 0.417041
Target:  5'- aGGCcGCGcUCGaccucauccuGGGCGUCGuaggccGCGCGUgCGg -3'
miRNA:   3'- -CCGaCGC-AGU----------CCCGCAGU------CGCGCA-GC- -5'
26650 3' -59.9 NC_005808.1 + 14401 0.66 0.417041
Target:  5'- aGGCguaGCGaagCuGGGCGUCgccaGGCGCGccugCGg -3'
miRNA:   3'- -CCGa--CGCa--GuCCCGCAG----UCGCGCa---GC- -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.