miRNA display CGI


Results 1 - 20 of 22 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
23927 5' -56.3 NC_005262.1 + 23406 0.66 0.717734
Target:  5'- aGGCGGCgaugCGGcggGCAgcaugagccGCGUCaUCGAg -3'
miRNA:   3'- gCCGUCGa---GCCuuaCGU---------CGCAG-AGCU- -5'
23927 5' -56.3 NC_005262.1 + 39582 0.66 0.717734
Target:  5'- uCGGCGuGC-CGGc--GCAGCGUCgCGGc -3'
miRNA:   3'- -GCCGU-CGaGCCuuaCGUCGCAGaGCU- -5'
23927 5' -56.3 NC_005262.1 + 14723 0.66 0.717734
Target:  5'- aCGGCcuGCUCGGGcagcgauugAaGCAGCccgCUCGAa -3'
miRNA:   3'- -GCCGu-CGAGCCU---------UaCGUCGca-GAGCU- -5'
23927 5' -56.3 NC_005262.1 + 33905 0.66 0.717734
Target:  5'- cCGGCGGCccgaUCGGua-GCGGCGgugccgagCUCGc -3'
miRNA:   3'- -GCCGUCG----AGCCuuaCGUCGCa-------GAGCu -5'
23927 5' -56.3 NC_005262.1 + 12553 0.66 0.66432
Target:  5'- gCGGCAGgUCGcg--GCGGCG-CUCGu -3'
miRNA:   3'- -GCCGUCgAGCcuuaCGUCGCaGAGCu -5'
23927 5' -56.3 NC_005262.1 + 30065 0.67 0.642677
Target:  5'- uCGGCgAGCuUCGccuu-CAGCGUCUCGAu -3'
miRNA:   3'- -GCCG-UCG-AGCcuuacGUCGCAGAGCU- -5'
23927 5' -56.3 NC_005262.1 + 59885 0.67 0.642677
Target:  5'- gGGguGCUgaacaCGGGAUGCAGC---UCGAu -3'
miRNA:   3'- gCCguCGA-----GCCUUACGUCGcagAGCU- -5'
23927 5' -56.3 NC_005262.1 + 56098 0.67 0.642677
Target:  5'- -uGCAGCUCGaGGAgGCGGCGcagcUCUCa- -3'
miRNA:   3'- gcCGUCGAGC-CUUaCGUCGC----AGAGcu -5'
23927 5' -56.3 NC_005262.1 + 48503 0.67 0.639426
Target:  5'- aCGGCAGCcgcaGGuAAcagcgcgcucgaccUGCAaucGCGUCUCGAu -3'
miRNA:   3'- -GCCGUCGag--CC-UU--------------ACGU---CGCAGAGCU- -5'
23927 5' -56.3 NC_005262.1 + 59314 0.67 0.639426
Target:  5'- aCGGCGGCUCGGGcaugacgacggcugAUGCGaacGCGaUCaUCGc -3'
miRNA:   3'- -GCCGUCGAGCCU--------------UACGU---CGC-AG-AGCu -5'
23927 5' -56.3 NC_005262.1 + 33951 0.67 0.620997
Target:  5'- gCGGCaAGCgauccCGGAAcGCGGCGUCg--- -3'
miRNA:   3'- -GCCG-UCGa----GCCUUaCGUCGCAGagcu -5'
23927 5' -56.3 NC_005262.1 + 36861 0.68 0.567114
Target:  5'- aCGGCGGUUCaGAAUGCAGUGa----- -3'
miRNA:   3'- -GCCGUCGAGcCUUACGUCGCagagcu -5'
23927 5' -56.3 NC_005262.1 + 30180 0.68 0.544807
Target:  5'- cCGGCGGCuuuuccugcgacgUCGGGGcgacUGCGGUGgcCUCGAu -3'
miRNA:   3'- -GCCGUCG-------------AGCCUU----ACGUCGCa-GAGCU- -5'
23927 5' -56.3 NC_005262.1 + 11919 0.69 0.535332
Target:  5'- gCGGCgucGGCUCGGucGUGCucGCGUCguucgCGGc -3'
miRNA:   3'- -GCCG---UCGAGCCu-UACGu-CGCAGa----GCU- -5'
23927 5' -56.3 NC_005262.1 + 7545 0.69 0.524874
Target:  5'- uCGGCGcGCUCGacGAcauccuucccGUGCAGCGUCaCGGa -3'
miRNA:   3'- -GCCGU-CGAGC--CU----------UACGUCGCAGaGCU- -5'
23927 5' -56.3 NC_005262.1 + 41132 0.69 0.492978
Target:  5'- aCGGCGcGCUCGGAcgacacguucaccGUGCAGCGcgcgCagGAg -3'
miRNA:   3'- -GCCGU-CGAGCCU-------------UACGUCGCa---GagCU- -5'
23927 5' -56.3 NC_005262.1 + 1430 0.7 0.434927
Target:  5'- gCGGCcGCuUCGucGAGcGCAGCGUUUCGAa -3'
miRNA:   3'- -GCCGuCG-AGC--CUUaCGUCGCAGAGCU- -5'
23927 5' -56.3 NC_005262.1 + 13516 0.71 0.41616
Target:  5'- gCGGCGGCaugagauaCGGAagcguGUGCAGCGgcaUCGAg -3'
miRNA:   3'- -GCCGUCGa-------GCCU-----UACGUCGCag-AGCU- -5'
23927 5' -56.3 NC_005262.1 + 8389 0.71 0.41616
Target:  5'- cCGGC-GCUCGaGcugcucGAUGCGGCG-CUCGAu -3'
miRNA:   3'- -GCCGuCGAGC-C------UUACGUCGCaGAGCU- -5'
23927 5' -56.3 NC_005262.1 + 45895 0.72 0.338177
Target:  5'- uCGGCGGCUCGccGAAaucggGCGGUG-CUCGAu -3'
miRNA:   3'- -GCCGUCGAGC--CUUa----CGUCGCaGAGCU- -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.