miRNA display CGI


Results 1 - 20 of 53 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
22949 5' -56.3 NC_005137.2 + 95752 0.68 0.777647
Target:  5'- cACGUCGcGCacaGUGCGCgGGCGGCa--- -3'
miRNA:   3'- -UGCAGUuUG---CGCGCGgCCGCUGcuuu -5'
22949 5' -56.3 NC_005137.2 + 48915 0.66 0.878392
Target:  5'- cGCGUCcAACGauCGCGCCgccuuguucGGCGACa--- -3'
miRNA:   3'- -UGCAGuUUGC--GCGCGG---------CCGCUGcuuu -5'
22949 5' -56.3 NC_005137.2 + 100144 0.66 0.878392
Target:  5'- gGCGguugguGCGUGCGCUgcuGGCGcACGAAGa -3'
miRNA:   3'- -UGCaguu--UGCGCGCGG---CCGC-UGCUUU- -5'
22949 5' -56.3 NC_005137.2 + 55577 0.66 0.839681
Target:  5'- gGCGgacgCGGGCG-GCGCCGugcGCGugGAGc -3'
miRNA:   3'- -UGCa---GUUUGCgCGCGGC---CGCugCUUu -5'
22949 5' -56.3 NC_005137.2 + 63273 0.66 0.839681
Target:  5'- --uUCAAGC-CGCGaCCGGCG-CGAAGc -3'
miRNA:   3'- ugcAGUUUGcGCGC-GGCCGCuGCUUU- -5'
22949 5' -56.3 NC_005137.2 + 96789 0.66 0.878392
Target:  5'- gUGUCAAAgGUGCGUCaGCGcCGAu- -3'
miRNA:   3'- uGCAGUUUgCGCGCGGcCGCuGCUuu -5'
22949 5' -56.3 NC_005137.2 + 123345 0.66 0.855792
Target:  5'- gACGccaCAAACGaCGUGCCGgGCGGCa--- -3'
miRNA:   3'- -UGCa--GUUUGC-GCGCGGC-CGCUGcuuu -5'
22949 5' -56.3 NC_005137.2 + 104235 0.66 0.847836
Target:  5'- gGCGUCAcAACGa--GCCGGCcagcacGACGAAGg -3'
miRNA:   3'- -UGCAGU-UUGCgcgCGGCCG------CUGCUUU- -5'
22949 5' -56.3 NC_005137.2 + 33028 0.67 0.80521
Target:  5'- cGCGUCGucguACGCGCGuuGG-GACu--- -3'
miRNA:   3'- -UGCAGUu---UGCGCGCggCCgCUGcuuu -5'
22949 5' -56.3 NC_005137.2 + 71532 0.69 0.72319
Target:  5'- uCGUCAAACGcCGCGUcgccgacagucaacgCGGcCGACGAc- -3'
miRNA:   3'- uGCAGUUUGC-GCGCG---------------GCC-GCUGCUuu -5'
22949 5' -56.3 NC_005137.2 + 22557 0.74 0.448104
Target:  5'- aGCGUCAGGCGCGCcauguuGCCGGUG-CGu-- -3'
miRNA:   3'- -UGCAGUUUGCGCG------CGGCCGCuGCuuu -5'
22949 5' -56.3 NC_005137.2 + 114260 0.66 0.855792
Target:  5'- aGCGgugCAGACGCacgcgGCGCuCGGCGAacUGAu- -3'
miRNA:   3'- -UGCa--GUUUGCG-----CGCG-GCCGCU--GCUuu -5'
22949 5' -56.3 NC_005137.2 + 42826 0.66 0.871076
Target:  5'- cCGUCGAuUGCGCGCUuGGCGuCGc-- -3'
miRNA:   3'- uGCAGUUuGCGCGCGG-CCGCuGCuuu -5'
22949 5' -56.3 NC_005137.2 + 30006 0.67 0.814089
Target:  5'- gGCGUUgagAAGCGCGCGaCCcuuuuuuaGcGCGGCGGAAa -3'
miRNA:   3'- -UGCAG---UUUGCGCGC-GG--------C-CGCUGCUUU- -5'
22949 5' -56.3 NC_005137.2 + 1655 0.67 0.80521
Target:  5'- cGCGUCG-----GCGCCGcGCGGCGGAAu -3'
miRNA:   3'- -UGCAGUuugcgCGCGGC-CGCUGCUUU- -5'
22949 5' -56.3 NC_005137.2 + 100228 0.66 0.855792
Target:  5'- cACGU---GCGCGCGCC-GCGGCa--- -3'
miRNA:   3'- -UGCAguuUGCGCGCGGcCGCUGcuuu -5'
22949 5' -56.3 NC_005137.2 + 45072 0.68 0.748887
Target:  5'- gGCGUC-AugGUaCGCC-GCGACGAGAa -3'
miRNA:   3'- -UGCAGuUugCGcGCGGcCGCUGCUUU- -5'
22949 5' -56.3 NC_005137.2 + 112556 0.69 0.688796
Target:  5'- ---aCAAugGCGCGCCGuGCG-CGAu- -3'
miRNA:   3'- ugcaGUUugCGCGCGGC-CGCuGCUuu -5'
22949 5' -56.3 NC_005137.2 + 76124 0.66 0.847836
Target:  5'- cCGUgCAccAACGCGCGCCGcGUcACGAc- -3'
miRNA:   3'- uGCA-GU--UUGCGCGCGGC-CGcUGCUuu -5'
22949 5' -56.3 NC_005137.2 + 96573 0.67 0.8228
Target:  5'- cGCGgCGGGCGCGuCGCCGcGCGgguaGCGGu- -3'
miRNA:   3'- -UGCaGUUUGCGC-GCGGC-CGC----UGCUuu -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.