miRNA display CGI


Results 1 - 20 of 101 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
26266 3' -57.9 NC_005345.2 + 48468 0.66 0.607606
Target:  5'- uCCGGaagCCUGCgcCGAagagCAACGCCgGg -3'
miRNA:   3'- -GGCCa--GGACGa-GCUgca-GUUGCGGgC- -5'
26266 3' -57.9 NC_005345.2 + 44284 0.66 0.607606
Target:  5'- gCCGGuagUCCccCUCGAUGUCGuCGCUCa -3'
miRNA:   3'- -GGCC---AGGacGAGCUGCAGUuGCGGGc -5'
26266 3' -57.9 NC_005345.2 + 34274 0.66 0.607606
Target:  5'- cUCGGcCCgacucGcCUCGgccGCGUCgAGCGCCCGc -3'
miRNA:   3'- -GGCCaGGa----C-GAGC---UGCAG-UUGCGGGC- -5'
26266 3' -57.9 NC_005345.2 + 30302 0.66 0.607606
Target:  5'- cCCGcaCCUGCUCGccugcccCGUUGACcagGCCCGg -3'
miRNA:   3'- -GGCcaGGACGAGCu------GCAGUUG---CGGGC- -5'
26266 3' -57.9 NC_005345.2 + 28737 0.66 0.607606
Target:  5'- gUCGGguUCCUGUacUCGGCccugcaGGCGCCCGc -3'
miRNA:   3'- -GGCC--AGGACG--AGCUGcag---UUGCGGGC- -5'
26266 3' -57.9 NC_005345.2 + 339 0.66 0.607606
Target:  5'- aCGGU-CUGCgUGuccuucuCGUCAAUGCCCa -3'
miRNA:   3'- gGCCAgGACGaGCu------GCAGUUGCGGGc -5'
26266 3' -57.9 NC_005345.2 + 24634 0.66 0.606537
Target:  5'- gCCGGgcgCCUcGCg-GugGUCGACcaggaucccgcggGCCCGg -3'
miRNA:   3'- -GGCCa--GGA-CGagCugCAGUUG-------------CGGGC- -5'
26266 3' -57.9 NC_005345.2 + 26729 0.66 0.596932
Target:  5'- -gGGUaCCcGCUCGACGUgAuCGCCg- -3'
miRNA:   3'- ggCCA-GGaCGAGCUGCAgUuGCGGgc -5'
26266 3' -57.9 NC_005345.2 + 6182 0.66 0.596932
Target:  5'- cCCGGcCCgGUUCGuGCG-CGugcCGCCCGg -3'
miRNA:   3'- -GGCCaGGaCGAGC-UGCaGUu--GCGGGC- -5'
26266 3' -57.9 NC_005345.2 + 11192 0.66 0.596932
Target:  5'- aCCGGaUCCcgauccGCUCGggcaccgucgGCGUCGagGCGUCCGc -3'
miRNA:   3'- -GGCC-AGGa-----CGAGC----------UGCAGU--UGCGGGC- -5'
26266 3' -57.9 NC_005345.2 + 24348 0.66 0.59054
Target:  5'- uCCGGUCgCccggcugcaccaccuUGC-CGAgGUCGgacgACGCCCGc -3'
miRNA:   3'- -GGCCAG-G---------------ACGaGCUgCAGU----UGCGGGC- -5'
26266 3' -57.9 NC_005345.2 + 17939 0.66 0.586285
Target:  5'- gUCGGUCCggaacUGUcCGGCGUC--CGCUCGg -3'
miRNA:   3'- -GGCCAGG-----ACGaGCUGCAGuuGCGGGC- -5'
26266 3' -57.9 NC_005345.2 + 31633 0.66 0.586285
Target:  5'- aCGGUCCUcGCccggcCGGCGacCGGCGgCCCGc -3'
miRNA:   3'- gGCCAGGA-CGa----GCUGCa-GUUGC-GGGC- -5'
26266 3' -57.9 NC_005345.2 + 16645 0.66 0.586285
Target:  5'- uCCGGUgCUGUUCGucaucACGgUCGAgGCCgCGc -3'
miRNA:   3'- -GGCCAgGACGAGC-----UGC-AGUUgCGG-GC- -5'
26266 3' -57.9 NC_005345.2 + 564 0.66 0.583098
Target:  5'- -gGGUCCUcGCccgccgcgagcucaUCGGCGcccgcauccgCGACGCCCGc -3'
miRNA:   3'- ggCCAGGA-CG--------------AGCUGCa---------GUUGCGGGC- -5'
26266 3' -57.9 NC_005345.2 + 14755 0.66 0.583098
Target:  5'- gUCGGUgaCgUGCUCGACcgggcucgucgacugCAACGCCCc -3'
miRNA:   3'- -GGCCA--GgACGAGCUGca-------------GUUGCGGGc -5'
26266 3' -57.9 NC_005345.2 + 27884 0.66 0.575676
Target:  5'- cCCGG-CCggGUUCGACGUaca-GCUCGg -3'
miRNA:   3'- -GGCCaGGa-CGAGCUGCAguugCGGGC- -5'
26266 3' -57.9 NC_005345.2 + 12289 0.66 0.575676
Target:  5'- cCUGGUCC-GCUCGGgaUCGAgUGCCCc -3'
miRNA:   3'- -GGCCAGGaCGAGCUgcAGUU-GCGGGc -5'
26266 3' -57.9 NC_005345.2 + 25710 0.66 0.575676
Target:  5'- aCCGGUCC-GgaCGGCGaaccCGACaCCCGg -3'
miRNA:   3'- -GGCCAGGaCgaGCUGCa---GUUGcGGGC- -5'
26266 3' -57.9 NC_005345.2 + 29611 0.66 0.575676
Target:  5'- aCGGUCCUGUccUCGAUGgggCugcCGCCg- -3'
miRNA:   3'- gGCCAGGACG--AGCUGCa--Guu-GCGGgc -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.